digraph workflow { graph [_draw_="c 9 -#fffffe00 C 7 -#eeeeee P 4 0 0 0 278 2278 278 2278 0 ", bb="0,0,2278,278", bgcolor="#eeeeee", clusterrank=local, color=black, dpi=96, fontsize=10, labeljust=left, nodesep=0.05, ranksep=0.22, xdotversion=1.7 ]; node [color=black, fillcolor=lightgoldenrodyellow, fontcolor=black, fontname=Helvetica, fontsize=10, height=0, label="\N", shape=record, style=filled, width=0 ]; edge [arrowsize=0.7, color=black, fontcolor=black, fontname=Helvetica, fontsize=8 ]; subgraph cluster_outputs { graph [_draw_="S 6 -dashed c 7 -#000000 C 7 -#eeeeee P 4 406 8 406 63 2270 63 2270 8 ", _ldraw_="F 10 11 -Times-Roman c 7 -#000000 T 460 15 0 92 16 -Workflow Outputs ", bb="406,8,2270,63", label="Workflow Outputs", labelloc=b, lheight=0.15, lp="460,17.5", lwidth=1.28, rank=same, style=dashed ]; busco_translated_proteins [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 1027.5 35.5 1027.5 54.5 1172.5 54.5 1172.5 35.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1100 42.5 0 129 25 -busco_translated_proteins ", fillcolor="#94DDF4", height=0.27778, label=busco_translated_proteins, pos="1100,45", rects="1027.5,35.5,1172.5,54.5", width=2.0139]; cutted_transcripts_file [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 2136.5 35.5 2136.5 54.5 2261.5 54.5 2261.5 35.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 2199 42.5 0 109 23 -cutted_transcripts_file ", fillcolor="#94DDF4", height=0.27778, label=cutted_transcripts_file, pos="2199,45", rects="2136.5,35.5,2261.5,54.5", width=1.7361]; busco_full_table [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 1177 35.5 1177 54.5 1273 54.5 1273 35.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1225 42.5 0 80 16 -busco_full_table ", fillcolor="#94DDF4", height=0.27778, label=busco_full_table, pos="1225,45", rects="1177,35.5,1273,54.5", width=1.3333]; deoverlapped_matches [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 1753.5 35.5 1753.5 54.5 1884.5 54.5 1884.5 35.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1819 42.5 0 115 20 -deoverlapped_matches ", fillcolor="#94DDF4", height=0.27778, label=deoverlapped_matches, pos="1819,45", rects="1753.5,35.5,1884.5,54.5", width=1.8194]; cleaned_transcripts_file [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 2000 35.5 2000 54.5 2132 54.5 2132 35.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 2066 42.5 0 116 24 -cleaned_transcripts_file ", fillcolor="#94DDF4", height=0.27778, label=cleaned_transcripts_file, pos="2066,45", rects="2000,35.5,2132,54.5", width=1.8333]; peptide_sequences [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 1639 35.5 1639 54.5 1749 54.5 1749 35.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1694 42.5 0 94 17 -peptide_sequences ", fillcolor="#94DDF4", height=0.27778, label=peptide_sequences, pos="1694,45", rects="1639,35.5,1749,54.5", width=1.5278]; busco_blast_output [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 1277.5 35.5 1277.5 54.5 1388.5 54.5 1388.5 35.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1333 42.5 0 95 18 -busco_blast_output ", fillcolor="#94DDF4", height=0.27778, label=busco_blast_output, pos="1333,45", rects="1277.5,35.5,1388.5,54.5", width=1.5417]; busco_hmmer_output [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 638 35.5 638 54.5 760 54.5 760 35.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 699 42.5 0 106 18 -busco_hmmer_output ", fillcolor="#94DDF4", height=0.27778, label=busco_hmmer_output, pos="699,45", rects="638,35.5,760,54.5", width=1.6944]; reformatted_sequences [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 502 35.5 502 54.5 634 54.5 634 35.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 568 42.5 0 116 21 -reformatted_sequences ", fillcolor="#94DDF4", height=0.27778, label=reformatted_sequences, pos="568,45", rects="502,35.5,634,54.5", width=1.8333]; busco_missing_buscos [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 764 35.5 764 54.5 892 54.5 892 35.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 828 42.5 0 112 20 -busco_missing_buscos ", fillcolor="#94DDF4", height=0.27778, label=busco_missing_buscos, pos="828,45", rects="764,35.5,892,54.5", width=1.7778]; gff3_output [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 1393 35.5 1393 54.5 1465 54.5 1465 35.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1429 42.5 0 56 11 -gff3_output ", fillcolor="#94DDF4", height=0.27778, label=gff3_output, pos="1429,45", rects="1393,35.5,1465,54.5", width=1]; coding_regions [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 1469 35.5 1469 54.5 1559 54.5 1559 35.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1514 42.5 0 74 14 -coding_regions ", fillcolor="#94DDF4", height=0.27778, label=coding_regions, pos="1514,45", rects="1469,35.5,1559,54.5", width=1.25]; bed_output [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 1563.5 35.5 1563.5 54.5 1634.5 54.5 1634.5 35.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1599 42.5 0 55 10 -bed_output ", fillcolor="#94DDF4", height=0.27778, label=bed_output, pos="1599,45", rects="1563.5,35.5,1634.5,54.5", width=0.98611]; busco_short_summary [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 896.5 35.5 896.5 54.5 1023.5 54.5 1023.5 35.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 960 42.5 0 111 19 -busco_short_summary ", fillcolor="#94DDF4", height=0.27778, label=busco_short_summary, pos="960,45", rects="896.5,35.5,1023.5,54.5", width=1.7639]; i5Annotations [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 414 35.5 414 54.5 498 54.5 498 35.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 456 42.5 0 68 13 -i5Annotations ", fillcolor="#94DDF4", height=0.27778, label=i5Annotations, pos="456,45", rects="414,35.5,498,54.5", width=1.1667]; diamond_matches [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 1888.5 35.5 1888.5 54.5 1995.5 54.5 1995.5 35.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1942 42.5 0 91 15 -diamond_matches ", fillcolor="#94DDF4", height=0.27778, label=diamond_matches, pos="1942,45", rects="1888.5,35.5,1995.5,54.5", width=1.4861]; } subgraph cluster_inputs { graph [_draw_="S 6 -dashed c 7 -#000000 C 7 -#eeeeee P 4 152 178 152 233 1488 233 1488 178 ", _ldraw_="F 10 11 -Times-Roman c 7 -#000000 T 202 221 0 84 15 -Workflow Inputs ", bb="152,178,1488,233", label="Workflow Inputs", lheight=0.15, lp="202,223.5", lwidth=1.17, rank=same, style=dashed ]; i5Applications [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 242 186.5 242 205.5 328 205.5 328 186.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 285 193.5 0 70 14 -i5Applications ", fillcolor="#94DDF4", height=0.27778, label=i5Applications, pos="285,196", rects="242,186.5,328,205.5", width=1.1944]; replace [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 608.5 186.5 608.5 205.5 661.5 205.5 661.5 186.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 635 193.5 0 37 7 -replace ", fillcolor="#94DDF4", height=0.27778, label=replace, pos="635,196", rects="608.5,186.5,661.5,205.5", width=0.73611]; covariance_models [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 1208.5 186.5 1208.5 205.5 1319.5 205.5 1319.5 186.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1264 193.5 0 95 17 -covariance_models ", fillcolor="#94DDF4", height=0.27778, label=covariance_models, pos="1264,196", rects="1208.5,186.5,1319.5,205.5", width=1.5417]; buscoOutputName [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 665.5 186.5 665.5 205.5 772.5 205.5 772.5 186.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 719 193.5 0 91 15 -buscoOutputName ", fillcolor="#94DDF4", height=0.27778, label=buscoOutputName, pos="719,196", rects="665.5,186.5,772.5,205.5", width=1.4861]; i5Databases [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 160.5 186.5 160.5 205.5 237.5 205.5 237.5 186.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 199 193.5 0 61 11 -i5Databases ", fillcolor="#94DDF4", height=0.27778, label=i5Databases, pos="199,196", rects="160.5,186.5,237.5,205.5", width=1.0694]; buscoMode [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 777 186.5 777 205.5 849 205.5 849 186.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 813 193.5 0 56 9 -buscoMode ", fillcolor="#94DDF4", height=0.27778, label=buscoMode, pos="813,196", rects="777,186.5,849,205.5", width=1]; blockSize [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 1323.5 186.5 1323.5 205.5 1386.5 205.5 1386.5 186.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1355 193.5 0 47 9 -blockSize ", fillcolor="#94DDF4", height=0.27778, label=blockSize, pos="1355,196", rects="1323.5,186.5,1386.5,205.5", width=0.875]; singleBestOnly [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 941 186.5 941 205.5 1031 205.5 1031 186.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 986 193.5 0 74 14 -singleBestOnly ", fillcolor="#94DDF4", height=0.27778, label=singleBestOnly, pos="986,196", rects="941,186.5,1031,205.5", width=1.25]; i5OutputFormat [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 422.5 186.5 422.5 205.5 515.5 205.5 515.5 186.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 469 193.5 0 77 14 -i5OutputFormat ", fillcolor="#94DDF4", height=0.27778, label=i5OutputFormat, pos="469,196", rects="422.5,186.5,515.5,205.5", width=1.2917]; buscoLineage [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 853.5 186.5 853.5 205.5 936.5 205.5 936.5 186.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 895 193.5 0 67 12 -buscoLineage ", fillcolor="#94DDF4", height=0.27778, label=buscoLineage, pos="895,196", rects="853.5,186.5,936.5,205.5", width=1.1528]; i5_chunk_size [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 519.5 186.5 519.5 205.5 604.5 205.5 604.5 186.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 562 193.5 0 69 13 -i5_chunk_size ", fillcolor="#94DDF4", height=0.27778, label=i5_chunk_size, pos="562,196", rects="519.5,186.5,604.5,205.5", width=1.1806]; cmsearchCores [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 1035 186.5 1035 205.5 1127 205.5 1127 186.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1081 193.5 0 76 13 -cmsearchCores ", fillcolor="#94DDF4", height=0.27778, label=cmsearchCores, pos="1081,196", rects="1035,186.5,1127,205.5", width=1.2778]; transcriptsFile [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 332 186.5 332 205.5 418 205.5 418 186.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 375 193.5 0 70 15 -transcriptsFile ", fillcolor="#94DDF4", height=0.27778, label=transcriptsFile, pos="375,196", rects="332,186.5,418,205.5", width=1.1944]; diamondSeqdb [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 1390.5 186.5 1390.5 205.5 1479.5 205.5 1479.5 186.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1435 193.5 0 73 12 -diamondSeqdb ", fillcolor="#94DDF4", height=0.27778, label=diamondSeqdb, pos="1435,196", rects="1390.5,186.5,1479.5,205.5", width=1.2361]; clanInfoFile [_draw_="c 7 -#000000 C 7 -#94ddf4 P 4 1131.5 186.5 1131.5 205.5 1204.5 205.5 1204.5 186.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1168 193.5 0 57 12 -clanInfoFile ", fillcolor="#94DDF4", height=0.27778, label=clanInfoFile, pos="1168,196", rects="1131.5,186.5,1204.5,205.5", width=1.0139]; } functional_analysis [_draw_="c 7 -#000000 C 7 -#f3cea1 P 4 0 35.5 0 54.5 398 54.5 398 35.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 199 42.5 0 382 77 -Runs InterProScan on batches of sequences to retrieve functional annotations. ", fillcolor="#F3CEA1", height=0.27778, label="Runs InterProScan on batches of sequences to retrieve functional annotations.", pos="199,45", rects="0,35.5,398,54.5", width=5.5278]; i5Applications -> functional_analysis [_draw_="c 7 -#000000 B 7 280.94 186.56 273.85 171.96 258.56 141.14 244 116 232.88 96.8 218.91 75.45 209.51 61.43 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 211.6 60.15 205.65 55.72 207.53 62.89 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 274.5 118.6 0 51 12 -applications ", label=applications, lp="274.5,120.5", pos="e,204.8,54.462 280.94,186.56 273.85,171.96 258.56,141.14 244,116 232.88,96.803 218.91,75.449 209.51,61.433"]; remove_asterisks_and_reformat [_draw_="c 7 -#000000 C 7 -#fafad2 P 4 429.5 88.5 429.5 107.5 722.5 107.5 722.5 88.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 576 95.5 0 277 54 -Normalizes input sequences to FASTA using esl-reformat ", height=0.27778, label="Normalizes input sequences to FASTA using esl-reformat", pos="576,98", rects="429.5,88.5,722.5,107.5", width=4.0694]; replace -> remove_asterisks_and_reformat [_draw_="c 7 -#000000 B 4 629.97 186.82 620.14 170.81 598.22 135.15 585.54 114.53 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 587.73 113.41 581.98 108.73 583.56 115.97 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 623.5 141.1 0 31 7 -replace ", label=replace, lp="623.5,143", pos="e,581.19,107.44 629.97,186.82 620.14,170.81 598.22,135.15 585.54,114.53"]; identify_nc_rna [_draw_="c 7 -#000000 C 7 -#f3cea1 P 4 1349.5 133.5 1349.5 152.5 1656.5 152.5 1656.5 133.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1503 140.5 0 291 56 -Identifies non-coding RNAs using Rfams covariance models ", fillcolor="#F3CEA1", height=0.27778, label="Identifies non-coding RNAs using Rfams covariance models", pos="1503,143", rects="1349.5,133.5,1656.5,152.5", width=4.2639]; covariance_models -> identify_nc_rna [_draw_="c 7 -#000000 B 10 1289.42 186.52 1300 183.33 1312.48 179.99 1324 178 1376.67 168.89 1392.09 182.75 1444 170 1456.6 166.91 1469.88 \ 161.29 1480.64 156.06 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1481.48 158.38 1486.64 153.05 1479.28 154 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1508.5 163.6 0 79 17 -covariance_models ", label=covariance_models, lp="1508.5,165.5", pos="e,1488,152.37 1289.4,186.52 1300,183.33 1312.5,179.99 1324,178 1376.7,168.89 1392.1,182.75 1444,170 1456.6,166.91 1469.9,161.29 \ 1480.6,156.06"]; run_transcriptome_assessment [_draw_="c 7 -#000000 C 7 -#fafad2 P 4 730 88.5 730 107.5 1164 107.5 1164 88.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 947 95.5 0 418 79 -Assesses genome assembly and annotation completeness with single-copy orthologs ", height=0.27778, label="Assesses genome assembly and annotation completeness with single-copy orthologs", pos="947,98", rects="730,88.5,1164,107.5", width=6.0278]; buscoOutputName -> run_transcriptome_assessment [_draw_="c 7 -#000000 B 7 700.9 186.64 678.51 175.14 645.15 153.53 661 133 669.81 121.59 728.72 113.56 790.81 108.18 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 790.91 110.63 797.67 107.6 790.49 105.75 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 687 141.1 0 52 10 -outputName ", label=outputName, lp="687,143", pos="e,799.18,107.47 700.9,186.64 678.51,175.14 645.15,153.53 661,133 669.81,121.59 728.72,113.56 790.81,108.18"]; i5Databases -> functional_analysis [_draw_="c 7 -#000000 B 4 199 186.56 199 162.69 199 94.37 199 62.6 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 201.45 62.86 199 55.86 196.55 62.86 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 221 118.6 0 44 9 -databases ", label=databases, lp="221,120.5", pos="e,199,54.345 199,186.56 199,162.69 199,94.367 199,62.604"]; buscoMode -> run_transcriptome_assessment [_draw_="c 7 -#000000 B 10 793.15 186.54 765.62 174.77 719.11 154.7 718 153 713.15 145.55 713.06 140.39 718 133 725.37 121.96 744.18 114.36 \ 768.03 109.15 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 768.44 111.57 774.82 107.77 767.47 106.76 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 730 141.1 0 24 4 -mode ", label=mode, lp="730,143", pos="e,776.3,107.47 793.15,186.54 765.62,174.77 719.11,154.7 718,153 713.15,145.55 713.06,140.39 718,133 725.37,121.96 744.18,114.36 \ 768.03,109.15"]; calculate_diamond_matches [_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1661 133.5 1661 152.5 2001 152.5 2001 133.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1831 140.5 0 324 63 -Aligns DNA query sequences against a protein reference database ", height=0.27778, label="Aligns DNA query sequences against a protein reference database", pos="1831,143", rects="1661,133.5,2001,152.5", width=4.7222]; blockSize -> calculate_diamond_matches [_draw_="c 7 -#000000 B 13 1369.58 186.52 1375.94 183.25 1383.63 179.85 1391 178 1459.2 160.89 1479.18 178.28 1549 170 1570.55 167.45 1575.48 \ 163.79 1597 161 1620.95 157.89 1646.36 155.32 1671.27 153.19 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1671.42 155.63 1678.19 152.61 1671.01 150.75 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1617 163.6 0 40 9 -blockSize ", label=blockSize, lp="1617,165.5", pos="e,1679.7,152.48 1369.6,186.52 1375.9,183.25 1383.6,179.85 1391,178 1459.2,160.89 1479.2,178.28 1549,170 1570.6,167.45 1575.5,163.79 \ 1597,161 1621,157.89 1646.4,155.32 1671.3,153.19"]; identify_coding_regions [_draw_="c 7 -#000000 C 7 -#f3cea1 P 4 782.5 133.5 782.5 152.5 1345.5 152.5 1345.5 133.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1064 140.5 0 547 109 -TransDecoder 2 step workflow, running TransDecoder.LongOrfs (step 1) followed \ by TransDecoder.Predict (step2) ", fillcolor="#F3CEA1", height=0.27778, label="TransDecoder 2 step workflow, running TransDecoder.LongOrfs (step 1) followed by TransDecoder.Predict (step2)", pos="1064,143", rects="782.5,133.5,1345.5,152.5", width=7.8194]; singleBestOnly -> identify_coding_regions [_draw_="c 7 -#000000 B 7 998.52 186.52 1008.8 179.59 1023.78 169.56 1037 161 1039.05 159.67 1041.19 158.3 1043.34 156.93 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1044.61 159.03 1049.22 153.21 1041.99 154.88 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1067.5 163.6 0 61 14 -singleBestOnly ", label=singleBestOnly, lp="1067.5,165.5", pos="e,1050.5,152.41 998.52,186.52 1008.8,179.59 1023.8,169.56 1037,161 1039,159.67 1041.2,158.3 1043.3,156.93"]; i5OutputFormat -> functional_analysis [_draw_="c 7 -#000000 B 7 449.81 186.61 439.4 181.93 426.38 175.89 415 170 341.73 132.1 257.7 81.82 219.65 58.66 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 221.21 56.75 213.96 55.19 218.66 60.93 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 359 118.6 0 56 12 -outputFormat ", label=outputFormat, lp="359,120.5", pos="e,212.67,54.405 449.81,186.61 439.4,181.93 426.38,175.89 415,170 341.73,132.1 257.7,81.822 219.65,58.664"]; buscoLineage -> run_transcriptome_assessment [_draw_="c 7 -#000000 B 10 874.11 186.53 866.58 183.63 857.97 180.49 850 178 803.48 163.45 718.6 170.28 750 133 759.75 121.42 785.72 113.79 \ 815.72 108.75 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 815.83 111.22 822.36 107.7 815.06 106.38 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 765.5 141.1 0 31 7 -lineage ", label=lineage, lp="765.5,143", pos="e,823.85,107.47 874.11,186.53 866.58,183.63 857.97,180.49 850,178 803.48,163.45 718.6,170.28 750,133 759.75,121.42 785.72,113.79 \ 815.72,108.75"]; i5_chunk_size -> functional_analysis [_draw_="c 7 -#000000 B 7 544.4 186.5 513.19 171.55 445.98 139.86 388 116 333.47 93.56 268.84 70.33 231.03 57.08 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 232.23 54.9 224.81 54.9 230.61 59.52 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 431 118.6 0 46 10 -chunk_size ", label=chunk_size, lp="431,120.5", pos="e,223.38,54.402 544.4,186.5 513.19,171.55 445.98,139.86 388,116 333.47,93.558 268.84,70.33 231.03,57.075"]; cmsearchCores -> identify_nc_rna [_draw_="c 7 -#000000 B 10 1103.44 186.59 1111.98 183.59 1121.86 180.38 1131 178 1171.67 167.43 1182.29 166.06 1224 161 1230.96 160.16 1288.49 \ 156.61 1349.51 152.97 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1349.4 155.43 1356.24 152.57 1349.11 150.54 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1235.5 163.6 0 23 5 -cores ", label=cores, lp="1235.5,165.5", pos="e,1357.7,152.48 1103.4,186.59 1112,183.59 1121.9,180.38 1131,178 1171.7,167.43 1182.3,166.06 1224,161 1231,160.16 1288.5,156.61 \ 1349.5,152.97"]; cut_fasta_header [_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1728 258.5 1728 277.5 1934 277.5 1934 258.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1831 265.5 0 190 37 -Cuts FASTA headers which are too long ", height=0.27778, label="Cuts FASTA headers which are too long", pos="1831,268", rects="1728,258.5,1934,277.5", width=2.8611]; transcriptsFile -> cut_fasta_header [_draw_="c 7 -#000000 B 7 382.69 205.44 391.28 214.2 406.1 227.4 422 233 482.76 254.42 1397.39 263.61 1719.66 266.19 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1719.55 268.64 1726.57 266.25 1719.59 263.74 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 706.5 243.6 0 35 9 -fastaFile ", label=fastaFile, lp="706.5,245.5", pos="e,1728.1,266.26 382.69,205.44 391.28,214.2 406.1,227.4 422,233 482.76,254.42 1397.4,263.61 1719.7,266.19"]; diamondSeqdb -> calculate_diamond_matches [_draw_="c 7 -#000000 B 10 1479.28 191.63 1566.34 184.99 1751.68 170.79 1755 170 1765.28 167.56 1767.06 164.59 1777 161 1782.66 158.96 1788.69 \ 156.92 1794.61 155 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1795.18 157.39 1801.1 152.93 1793.69 152.72 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1803.5 163.6 0 53 12 -databaseFile ", label=databaseFile, lp="1803.5,165.5", pos="e,1802.5,152.47 1479.3,191.63 1566.3,184.99 1751.7,170.79 1755,170 1765.3,167.56 1767.1,164.59 1777,161 1782.7,158.96 1788.7,156.92 \ 1794.6,155"]; clanInfoFile -> identify_nc_rna [_draw_="c 7 -#000000 B 7 1185.2 186.67 1192.4 183.5 1200.96 180.14 1209 178 1253.65 166.14 1303.19 158.42 1348.69 153.39 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1348.94 155.83 1355.64 152.64 1348.41 150.96 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1306.5 163.6 0 37 9 -clan_info ", label=clan_info, lp="1306.5,165.5", pos="e,1357.1,152.48 1185.2,186.67 1192.4,183.5 1201,180.14 1209,178 1253.6,166.14 1303.2,158.42 1348.7,153.39"]; identify_nc_rna -> deoverlapped_matches [_draw_="c 7 -#000000 B 10 1651.86 133.5 1654.93 133.33 1657.98 133.17 1661 133 1669.39 132.54 1805.96 130.83 1812 125 1828.52 109.06 1826.49 \ 80.37 1823.07 62.31 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1825.55 62.19 1821.67 55.87 1820.76 63.23 ", pos="e,1821.3,54.393 1651.9,133.5 1654.9,133.33 1658,133.17 1661,133 1669.4,132.54 1806,130.83 1812,125 1828.5,109.06 1826.5,80.375 1823.1,\ 62.307"]; remove_asterisks_and_reformat -> reformatted_sequences [_draw_="c 7 -#000000 B 4 574.68 88.58 573.57 81.52 571.96 71.24 570.6 62.55 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 573.04 62.3 569.53 55.76 568.2 63.06 ", pos="e,569.3,54.265 574.68,88.578 573.57,81.523 571.96,71.24 570.6,62.547"]; remove_asterisks_and_reformat -> functional_analysis [_draw_="c 7 -#000000 B 7 530.25 88.52 499.9 83.07 459.15 76.08 423 71 380.76 65.06 333.89 59.65 293.98 55.39 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 294.3 52.96 287.08 54.66 293.78 57.83 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 494.5 73.6 0 35 9 -inputFile ", label=inputFile, lp="494.5,75.5", pos="e,285.57,54.496 530.25,88.521 499.9,83.071 459.15,76.085 423,71 380.76,65.059 333.89,59.646 293.98,55.387"]; calculate_diamond_matches -> diamond_matches [_draw_="c 7 -#000000 B 4 1840.46 133.82 1859.46 117.39 1902.4 80.25 1925.9 59.93 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1927.41 61.86 1931.1 55.43 1924.2 58.15 ", pos="e,1932.2,54.438 1840.5,133.82 1859.5,117.39 1902.4,80.25 1925.9,59.928"]; cut_fasta_header -> cutted_transcripts_file [_draw_="c 7 -#000000 B 10 1933.59 263.33 2024.53 257.19 2143 240.79 2143 197 2143 197 2143 197 2143 97 2143 79.87 2157.51 66.96 2171.75 \ 58.42 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 2172.84 60.62 2177.77 55.09 2170.46 56.33 ", pos="e,2179.1,54.354 1933.6,263.33 2024.5,257.19 2143,240.79 2143,197 2143,197 2143,197 2143,97 2143,79.867 2157.5,66.964 2171.8,58.422"]; clean_fasta_header [_draw_="c 7 -#000000 C 7 -#fafad2 P 4 1662 186.5 1662 205.5 2000 205.5 2000 186.5 ", _ldraw_="F 10 9 -Helvetica c 7 -#000000 T 1831 193.5 0 322 62 -Replaces problematic characters from FASTA headers with dashes ", height=0.27778, label="Replaces problematic characters from FASTA headers with dashes", pos="1831,196", rects="1662,186.5,2000,205.5", width=4.6944]; cut_fasta_header -> clean_fasta_header [_draw_="c 7 -#000000 B 4 1831 258.7 1831 247.64 1831 227.85 1831 213.66 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1833.45 213.81 1831 206.81 1828.55 213.81 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1854 243.6 0 46 9 -sequences ", label=sequences, lp="1854,245.5", pos="e,1831,205.29 1831,258.7 1831,247.64 1831,227.85 1831,213.66"]; identify_coding_regions -> peptide_sequences [_draw_="c 7 -#000000 B 13 1156.13 133.52 1184.92 130.84 1216.78 127.83 1246 125 1321.14 117.71 1340.37 119.36 1415 108 1513.67 92.99 1538.09 \ 86.83 1635 63 1642.53 61.15 1650.54 58.98 1658.15 56.82 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1658.71 59.21 1664.75 54.91 1657.35 54.5 ", pos="e,1666.2,54.495 1156.1,133.52 1184.9,130.84 1216.8,127.83 1246,125 1321.1,117.71 1340.4,119.36 1415,108 1513.7,92.986 1538.1,86.835 \ 1635,63 1642.5,61.149 1650.5,58.978 1658.1,56.819"]; identify_coding_regions -> gff3_output [_draw_="c 7 -#000000 B 7 1108.81 133.53 1172.09 121.02 1290.89 95.53 1389 63 1393.68 61.45 1398.58 59.58 1403.28 57.66 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1404.04 60 1409.53 55.01 1402.13 55.49 ", pos="e,1410.9,54.425 1108.8,133.53 1172.1,121.02 1290.9,95.529 1389,63 1393.7,61.448 1398.6,59.581 1403.3,57.661"]; identify_coding_regions -> coding_regions [_draw_="c 7 -#000000 B 10 1122.19 133.53 1139.52 130.91 1158.54 127.94 1176 125 1305.55 103.21 1338.72 99.21 1465 63 1470.95 61.29 1477.24 \ 59.28 1483.25 57.24 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1483.99 59.58 1489.8 54.97 1482.38 54.95 ", pos="e,1491.2,54.48 1122.2,133.53 1139.5,130.91 1158.5,127.94 1176,125 1305.5,103.21 1338.7,99.21 1465,63 1471,61.294 1477.2,59.278 1483.3,\ 57.242"]; identify_coding_regions -> bed_output [_draw_="c 7 -#000000 B 10 1136.49 133.51 1158.5 130.86 1182.75 127.88 1205 125 1363.84 104.45 1407.05 110.54 1560 63 1564.7 61.54 1569.59 \ 59.69 1574.26 57.75 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1575.01 60.1 1580.45 55.06 1573.05 55.6 ", pos="e,1581.8,54.451 1136.5,133.51 1158.5,130.86 1182.7,127.88 1205,125 1363.8,104.45 1407.1,110.54 1560,63 1564.7,61.54 1569.6,59.688 \ 1574.3,57.747"]; identify_coding_regions -> remove_asterisks_and_reformat [_draw_="c 7 -#000000 B 4 967.59 133.5 884.79 126.21 765.68 115.71 680.6 108.22 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 680.91 105.78 673.72 107.61 680.48 110.67 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 886 118.6 0 46 9 -sequences ", label=sequences, lp="886,120.5", pos="e,672.21,107.48 967.59,133.5 884.79,126.21 765.68,115.71 680.6,108.22"]; clean_fasta_header -> cleaned_transcripts_file [_draw_="c 7 -#000000 B 7 1962.55 186.51 2007.82 180.53 2050.57 170.35 2064 153 2084.28 126.8 2077.28 85.18 2071.16 62.34 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 2073.56 61.81 2069.26 55.77 2068.85 63.17 ", pos="e,2068.8,54.313 1962.5,186.51 2007.8,180.53 2050.6,170.35 2064,153 2084.3,126.8 2077.3,85.182 2071.2,62.338"]; clean_fasta_header -> identify_nc_rna [_draw_="c 7 -#000000 B 10 1779.94 186.51 1751.9 181.78 1716.5 175.71 1685 170 1664.07 166.21 1659.01 164.33 1638 161 1620.9 158.29 1602.53 \ 155.74 1585.02 153.48 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1585.8 151.11 1578.54 152.65 1585.18 155.97 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1721.5 163.6 0 73 15 -query_sequences ", label=query_sequences, lp="1721.5,165.5", pos="e,1577,152.46 1779.9,186.51 1751.9,181.78 1716.5,175.71 1685,170 1664.1,166.21 1659,164.33 1638,161 1620.9,158.29 1602.5,155.74 \ 1585,153.48"]; clean_fasta_header -> calculate_diamond_matches [_draw_="c 7 -#000000 B 4 1831 186.58 1831 179.52 1831 169.24 1831 160.55 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1833.45 160.78 1831 153.78 1828.55 160.78 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1860 163.6 0 58 14 -queryInputFile ", label=queryInputFile, lp="1860,165.5", pos="e,1831,152.26 1831,186.58 1831,179.52 1831,169.24 1831,160.55"]; clean_fasta_header -> identify_coding_regions [_draw_="c 7 -#000000 B 10 1662.03 187.2 1558.92 182.11 1437.21 175.43 1385 170 1358.62 167.25 1352.37 163.86 1326 161 1297.21 157.88 1266.58 \ 155.26 1236.79 153.08 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1237.08 150.65 1229.92 152.59 1236.72 155.53 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 1414 163.6 0 58 15 -transcriptsFile ", label=transcriptsFile, lp="1414,165.5", pos="e,1228.4,152.48 1662,187.2 1558.9,182.11 1437.2,175.43 1385,170 1358.6,167.25 1352.4,163.86 1326,161 1297.2,157.88 1266.6,155.26 \ 1236.8,153.08"]; clean_fasta_header -> run_transcriptome_assessment [_draw_="c 7 -#000000 B 7 1931.74 186.51 1983.4 178.46 2029.96 162.9 2001 133 1972.64 103.71 1473.36 98.72 1172.29 98.39 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1172.4 95.94 1165.4 98.39 1172.4 100.84 ", _ldraw_="F 8 9 -Helvetica c 7 -#000000 T 2036.5 141.1 0 55 12 -sequenceFile ", label=sequenceFile, lp="2036.5,143", pos="e,1163.9,98.387 1931.7,186.51 1983.4,178.46 2030,162.9 2001,133 1972.6,103.71 1473.4,98.721 1172.3,98.394"]; functional_analysis -> i5Annotations; run_transcriptome_assessment -> busco_translated_proteins [_draw_="c 7 -#000000 B 4 972.26 88.58 998.07 79.98 1038.26 66.58 1066.66 57.11 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1067.4 59.45 1073.26 54.91 1065.85 54.8 ", pos="e,1074.7,54.434 972.26,88.578 998.07,79.978 1038.3,66.58 1066.7,57.114"]; run_transcriptome_assessment -> busco_full_table [_draw_="c 7 -#000000 B 7 1025.01 88.52 1068.84 82.94 1124.35 74.53 1173 63 1179.91 61.36 1187.22 59.23 1194.1 57.04 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1194.62 59.45 1200.5 54.93 1193.09 54.79 ", pos="e,1201.9,54.454 1025,88.519 1068.8,82.943 1124.4,74.526 1173,63 1179.9,61.363 1187.2,59.233 1194.1,57.037"]; run_transcriptome_assessment -> busco_blast_output [_draw_="c 7 -#000000 B 7 1080.64 88.51 1140.19 83.34 1210.98 75.29 1274 63 1282.32 61.38 1291.16 59.12 1299.4 56.79 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 1299.91 59.19 1305.94 54.87 1298.53 54.49 ", pos="e,1307.4,54.443 1080.6,88.51 1140.2,83.341 1211,75.287 1274,63 1282.3,61.378 1291.2,59.124 1299.4,56.787"]; run_transcriptome_assessment -> busco_hmmer_output [_draw_="c 7 -#000000 B 7 895.92 88.53 859.1 82.17 808.31 72.9 764 63 755.46 61.09 746.34 58.84 737.72 56.62 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 738.5 54.29 731.1 54.88 737.25 59.03 ", pos="e,729.64,54.499 895.92,88.526 859.1,82.172 808.31,72.897 764,63 755.46,61.092 746.34,58.843 737.72,56.616"]; run_transcriptome_assessment -> busco_missing_buscos [_draw_="c 7 -#000000 B 4 927.35 88.58 907.71 80.16 877.36 67.15 855.37 57.73 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 856.47 55.54 849.07 55.03 854.54 60.04 ", pos="e,847.68,54.434 927.35,88.578 907.71,80.162 877.36,67.153 855.37,57.729"]; run_transcriptome_assessment -> busco_short_summary [_draw_="c 7 -#000000 B 4 949.15 88.58 950.96 81.45 953.62 71.02 955.85 62.27 ", _hdraw_="S 5 -solid c 7 -#000000 C 7 -#000000 P 3 958.16 63.12 957.52 55.73 953.42 61.91 ", pos="e,957.89,54.265 949.15,88.578 950.96,81.449 953.62,71.023 955.85,62.273"]; }