Mercurial > repos > iuc > krakentools_extract_kraken_reads
view test-data/sample.tabular @ 0:519e0835abd7 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/krakentools commit 92c58a65005708fbd56b27b86969c01a1258ddb9
| author | iuc |
|---|---|
| date | Wed, 15 Mar 2023 18:18:27 +0000 |
| parents | |
| children |
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38.00 513 513 U 0 unclassified 62.00 837 1 R 1 root 61.93 836 27 R1 131567 cellular organisms 56.00 756 3 D 2759 Eukaryota 55.33 747 3 D1 33154 Opisthokonta 29.78 402 0 K 33208 Metazoa 29.78 402 0 K1 6072 Eumetazoa 29.78 402 0 K2 33213 Bilateria 29.78 402 0 K3 33511 Deuterostomia 29.78 402 0 P 7711 Chordata 29.78 402 0 P1 89593 Craniata 29.78 402 0 P2 7742 Vertebrata 29.78 402 0 P3 7776 Gnathostomata 29.78 402 0 P4 117570 Teleostomi 29.78 402 0 P5 117571 Euteleostomi 29.78 402 0 P6 8287 Sarcopterygii 29.78 402 0 P7 1338369 Dipnotetrapodomorpha 29.78 402 0 P8 32523 Tetrapoda 29.78 402 0 P9 32524 Amniota 29.78 402 0 C 40674 Mammalia 29.78 402 0 C1 32525 Theria 29.78 402 0 C2 9347 Eutheria 29.78 402 0 C3 1437010 Boreoeutheria 29.78 402 0 C4 314146 Euarchontoglires 29.78 402 0 O 9443 Primates 29.78 402 0 O1 376913 Haplorrhini 29.78 402 0 O2 314293 Simiiformes 29.78 402 0 O3 9526 Catarrhini 29.78 402 0 O4 314295 Hominoidea 29.78 402 0 F 9604 Hominidae 29.78 402 0 F1 207598 Homininae 29.78 402 0 G 9605 Homo 29.78 402 402 S 9606 Homo sapiens 25.33 342 0 K 4751 Fungi 25.33 342 1 K1 451864 Dikarya 25.26 341 0 P 4890 Ascomycota 25.19 340 0 P1 716545 saccharomyceta 24.89 336 0 P2 147537 Saccharomycotina 24.89 336 0 C 4891 Saccharomycetes 24.89 336 1 O 4892 Saccharomycetales 24.67 333 3 F 4893 Saccharomycetaceae 24.37 329 11 G 4930 Saccharomyces 21.70 293 0 S 4932 Saccharomyces cerevisiae 21.70 293 293 S1 559292 Saccharomyces cerevisiae S288C 1.11 15 15 S 27291 Saccharomyces paradoxus 0.74 10 10 S 1080349 Saccharomyces eubayanus 0.07 1 0 G 4910 Kluyveromyces 0.07 1 0 S 4911 Kluyveromyces marxianus 0.07 1 1 S1 1003335 Kluyveromyces marxianus DMKU3-1042 0.07 1 0 F 410830 Trichomonascaceae 0.07 1 0 G 410829 Sugiyamaella 0.07 1 1 S 796027 Sugiyamaella lignohabitans 0.07 1 0 O1 2916678 CUG-Ser1 clade 0.07 1 0 F 766764 Debaryomycetaceae 0.07 1 0 F1 1535325 Candida/Lodderomyces clade 0.07 1 0 G 1535326 Candida 0.07 1 0 S 42374 Candida dubliniensis 0.07 1 1 S1 573826 Candida dubliniensis CD36 0.30 4 0 P2 147538 Pezizomycotina 0.30 4 0 P3 716546 leotiomyceta 0.22 3 0 P4 715989 sordariomyceta 0.22 3 0 C 147550 Sordariomycetes 0.15 2 0 C1 222544 Sordariomycetidae 0.07 1 0 O 5139 Sordariales 0.07 1 0 F 5148 Sordariaceae 0.07 1 0 G 5140 Neurospora 0.07 1 0 S 5141 Neurospora crassa 0.07 1 1 S1 367110 Neurospora crassa OR74A 0.07 1 0 O 639021 Magnaporthales 0.07 1 0 F 2528436 Pyriculariaceae 0.07 1 0 G 48558 Pyricularia 0.07 1 1 S 1578925 Pyricularia pennisetigena 0.07 1 1 C1 222543 Hypocreomycetidae 0.07 1 0 C 147545 Eurotiomycetes 0.07 1 0 C1 451871 Eurotiomycetidae 0.07 1 0 O 5042 Eurotiales 0.07 1 0 F 1131492 Aspergillaceae 0.07 1 0 G 5052 Aspergillus 0.07 1 1 S 1069201 Aspergillus luchuensis 0.07 1 0 P1 451866 Taphrinomycotina 0.07 1 0 C 147554 Schizosaccharomycetes 0.07 1 0 O 34346 Schizosaccharomycetales 0.07 1 0 F 4894 Schizosaccharomycetaceae 0.07 1 0 G 4895 Schizosaccharomyces 0.07 1 1 S 4896 Schizosaccharomyces pombe 0.37 5 0 D1 2698737 Sar 0.37 5 0 D2 33630 Alveolata 0.37 5 0 P 5794 Apicomplexa 0.30 4 0 C 422676 Aconoidasida 0.30 4 0 O 5819 Haemosporida 0.30 4 0 F 1639119 Plasmodiidae 0.30 4 0 G 5820 Plasmodium 0.15 2 0 G1 418103 Plasmodium (Plasmodium) 0.07 1 1 S 5855 Plasmodium vivax 0.07 1 1 S 5858 Plasmodium malariae 0.07 1 1 S 208452 Plasmodium coatneyi 0.07 1 0 G1 418101 Plasmodium (Vinckeia) 0.07 1 0 S 5825 Plasmodium chabaudi 0.07 1 1 S1 31271 Plasmodium chabaudi chabaudi 0.07 1 0 C 1280412 Conoidasida 0.07 1 0 C1 5796 Coccidia 0.07 1 0 O 75739 Eucoccidiorida 0.07 1 0 O1 423054 Eimeriorina 0.07 1 0 F 35082 Cryptosporidiidae 0.07 1 0 G 5806 Cryptosporidium 0.07 1 0 S 5807 Cryptosporidium parvum 0.07 1 1 S1 353152 Cryptosporidium parvum Iowa II 0.07 1 0 D1 554915 Amoebozoa 0.07 1 0 P 2605435 Evosea 0.07 1 0 C 142796 Eumycetozoa 0.07 1 0 C1 33083 Dictyostelia 0.07 1 0 O 2058949 Dictyosteliales 0.07 1 0 F 2058185 Dictyosteliaceae 0.07 1 0 G 5782 Dictyostelium 0.07 1 0 S 44689 Dictyostelium discoideum 0.07 1 1 S1 352472 Dictyostelium discoideum AX4 3.78 51 1 D 2 Bacteria 1.63 22 2 D1 1783272 Terrabacteria group 1.26 17 0 P 1239 Firmicutes 0.67 9 0 C 186801 Clostridia 0.67 9 0 O 186802 Eubacteriales 0.30 4 0 F 31979 Clostridiaceae 0.30 4 1 G 1485 Clostridium 0.07 1 0 G1 2614128 unclassified Clostridium 0.07 1 1 S 1702238 Clostridium sp. MF28 0.07 1 0 S 1501 Clostridium pasteurianum 0.07 1 1 S1 86416 Clostridium pasteurianum BC1 0.07 1 0 S 217159 Clostridium carboxidivorans 0.07 1 1 S1 536227 Clostridium carboxidivorans P7 0.15 2 0 F 186804 Peptostreptococcaceae 0.15 2 0 G 1870884 Clostridioides 0.07 1 1 S 1496 Clostridioides difficile 0.07 1 1 G1 2635829 unclassified Clostridioides 0.07 1 0 F 186803 Lachnospiraceae 0.07 1 0 G 1506553 Lachnoclostridium 0.07 1 1 S 89153 [Clostridium] hylemonae 0.07 1 0 F 216572 Oscillospiraceae 0.07 1 0 G 2039302 Monoglobus 0.07 1 1 S 1981510 Monoglobus pectinilyticus 0.07 1 0 O1 538999 Eubacteriales incertae sedis 0.07 1 0 F 543314 Eubacteriales Family XIII. Incertae Sedis 0.07 1 0 G 86331 Mogibacterium 0.07 1 1 S 86332 Mogibacterium pumilum 0.59 8 0 C 91061 Bacilli 0.44 6 0 O 1385 Bacillales 0.22 3 0 F 186817 Bacillaceae 0.15 2 0 G 1386 Bacillus 0.15 2 2 G1 86661 Bacillus cereus group 0.07 1 0 G 45667 Halobacillus 0.07 1 1 S 45668 Halobacillus litoralis 0.15 2 0 F 90964 Staphylococcaceae 0.07 1 0 G 1279 Staphylococcus 0.07 1 1 S 33028 Staphylococcus saccharolyticus 0.07 1 0 G 227979 Jeotgalicoccus 0.07 1 1 S 1461582 Jeotgalicoccus saudimassiliensis 0.07 1 0 F 186822 Paenibacillaceae 0.07 1 0 G 44249 Paenibacillus 0.07 1 1 S 116718 Paenibacillus azoreducens 0.15 2 0 O 186826 Lactobacillales 0.07 1 0 F 1300 Streptococcaceae 0.07 1 0 G 1357 Lactococcus 0.07 1 0 S 1358 Lactococcus lactis 0.07 1 0 S1 1360 Lactococcus lactis subsp. lactis 0.07 1 1 S2 889971 Lactococcus lactis subsp. lactis K214 0.07 1 0 F 33958 Lactobacillaceae 0.07 1 0 G 46255 Weissella 0.07 1 1 S 1249 Weissella paramesenteroides 0.15 2 0 P 544448 Tenericutes 0.07 1 0 C 31969 Mollicutes 0.07 1 0 O 2085 Mycoplasmatales 0.07 1 0 F 2092 Mycoplasmataceae 0.07 1 0 G 2093 Mycoplasma 0.07 1 0 G1 2683645 unclassified Mycoplasma 0.07 1 1 S 353851 Mycoplasma sp. Ms02 0.07 1 0 O 2790996 Mycoplasmoidales 0.07 1 0 F 2895623 Metamycoplasmataceae 0.07 1 0 G 2895509 Metamycoplasma 0.07 1 1 S 142649 Metamycoplasma phocicerebrale 0.07 1 0 D2 1798711 Cyanobacteria/Melainabacteria group 0.07 1 0 P 1117 Cyanobacteria 0.07 1 0 P1 1301283 Oscillatoriophycideae 0.07 1 0 O 1118 Chroococcales 0.07 1 0 F 1890464 Chroococcaceae 0.07 1 0 G 268175 Chondrocystis 0.07 1 0 G1 2648896 unclassified Chondrocystis 0.07 1 1 S 2005460 Chondrocystis sp. NIES-4102 1.33 18 0 P 1224 Proteobacteria 1.04 14 0 C 1236 Gammaproteobacteria 0.44 6 0 O 91347 Enterobacterales 0.15 2 0 F 543 Enterobacteriaceae 0.07 1 0 G 561 Escherichia 0.07 1 0 S 562 Escherichia coli 0.07 1 0 S1 83333 Escherichia coli K-12 0.07 1 1 S2 595496 Escherichia coli BW2952 0.07 1 0 G 544 Citrobacter 0.07 1 0 G1 2644389 unclassified Citrobacter 0.07 1 1 S 2742657 Citrobacter sp. RHBSTW-00599 0.15 2 0 F 1903409 Erwiniaceae 0.07 1 0 G 551 Erwinia 0.07 1 1 S 1922217 Candidatus Erwinia haradaeae 0.07 1 0 G 32199 Buchnera 0.07 1 0 S 9 Buchnera aphidicola 0.07 1 0 S1 118117 Buchnera aphidicola (Uroleucon ambrosiae) 0.07 1 1 S2 1005057 Buchnera aphidicola str. Ua (Uroleucon ambrosiae) 0.07 1 0 F 1903411 Yersiniaceae 0.07 1 0 G 34037 Rahnella 0.07 1 0 S 34038 Rahnella aquatilis 0.07 1 1 S1 745277 Rahnella aquatilis CIP 78.65 = ATCC 33071 0.07 1 0 F 1903414 Morganellaceae 0.07 1 0 G 29487 Photorhabdus 0.07 1 1 S 291112 Photorhabdus asymbiotica 0.37 5 0 O 72273 Thiotrichales 0.37 5 0 F 34064 Francisellaceae 0.37 5 0 G 262 Francisella 0.37 5 5 S 549298 Francisella halioticida 0.07 1 0 C1 118884 Gammaproteobacteria incertae sedis 0.07 1 0 G 204619 Candidatus Nardonella 0.07 1 1 S 1972134 endosymbiont of Sipalinus gigas 0.07 1 0 O 135623 Vibrionales 0.07 1 0 F 641 Vibrionaceae 0.07 1 0 G 662 Vibrio 0.07 1 0 G1 717610 Vibrio harveyi group 0.07 1 1 S 512649 Vibrio azureus 0.07 1 0 O 135625 Pasteurellales 0.07 1 0 F 712 Pasteurellaceae 0.07 1 0 G 416916 Aggregatibacter 0.07 1 0 G1 2639383 unclassified Aggregatibacter 0.07 1 1 S 712150 Aggregatibacter sp. oral taxon 513 0.15 2 0 C 28216 Betaproteobacteria 0.07 1 0 O 80840 Burkholderiales 0.07 1 0 F 119060 Burkholderiaceae 0.07 1 0 G 106589 Cupriavidus 0.07 1 1 S 68895 Cupriavidus basilensis 0.07 1 0 C1 119066 Betaproteobacteria incertae sedis 0.07 1 0 G 33055 Candidatus Kinetoplastibacterium 0.07 1 1 S 33056 Candidatus Kinetoplastibacterium crithidii 0.15 2 0 P1 68525 delta/epsilon subdivisions 0.15 2 0 C 29547 Epsilonproteobacteria 0.15 2 0 O 213849 Campylobacterales 0.15 2 0 F 72294 Campylobacteraceae 0.15 2 0 G 194 Campylobacter 0.15 2 2 S 1813019 Campylobacter hepaticus 0.52 7 0 D1 1783270 FCB group 0.52 7 0 D2 68336 Bacteroidetes/Chlorobi group 0.52 7 0 P 976 Bacteroidetes 0.22 3 0 C 117743 Flavobacteriia 0.22 3 0 O 200644 Flavobacteriales 0.07 1 0 F 39782 Blattabacteriaceae 0.07 1 0 G 34098 Blattabacterium 0.07 1 1 S 1653831 Blattabacterium cuenoti 0.07 1 0 F 49546 Flavobacteriaceae 0.07 1 0 G 336276 Olleya 0.07 1 1 G1 2615019 unclassified Olleya 0.07 1 0 F 2762318 Weeksellaceae 0.07 1 0 F1 2782232 Chryseobacterium group 0.07 1 0 G 59732 Chryseobacterium 0.07 1 0 G1 2593645 unclassified Chryseobacterium 0.07 1 1 S 2759528 Chryseobacterium sp. DH-B6 0.15 2 0 C 200643 Bacteroidia 0.15 2 2 O 171549 Bacteroidales 0.07 1 0 C 117747 Sphingobacteriia 0.07 1 0 O 200666 Sphingobacteriales 0.07 1 0 F 84566 Sphingobacteriaceae 0.07 1 0 G 28453 Sphingobacterium 0.07 1 1 S 28454 Sphingobacterium multivorum 0.07 1 0 C 768503 Cytophagia 0.07 1 0 O 768507 Cytophagales 0.07 1 0 F 200667 Flammeovirgaceae 0.07 1 0 G 59739 Flammeovirga 0.07 1 1 S 373891 Flammeovirga kamogawensis 0.15 2 0 P 32066 Fusobacteria 0.15 2 0 C 203490 Fusobacteriia 0.15 2 0 O 203491 Fusobacteriales 0.15 2 0 F 203492 Fusobacteriaceae 0.15 2 0 G 848 Fusobacterium 0.07 1 0 S 851 Fusobacterium nucleatum 0.07 1 1 S1 76857 Fusobacterium nucleatum subsp. polymorphum 0.07 1 1 S 1583098 Fusobacterium hwasookii 0.07 1 0 P 203691 Spirochaetes 0.07 1 0 C 203692 Spirochaetia 0.07 1 0 O 1643686 Brachyspirales 0.07 1 0 F 143786 Brachyspiraceae 0.07 1 0 G 29521 Brachyspira 0.07 1 1 S 159 Brachyspira hyodysenteriae 0.15 2 0 D 2157 Archaea 0.07 1 0 P 28890 Euryarchaeota 0.07 1 0 P1 2290931 Stenosarchaea group 0.07 1 0 C 224756 Methanomicrobia 0.07 1 0 O 94695 Methanosarcinales 0.07 1 0 F 2206 Methanosarcinaceae 0.07 1 0 G 2207 Methanosarcina 0.07 1 0 S 2208 Methanosarcina barkeri 0.07 1 1 S1 1434107 Methanosarcina barkeri 3 0.07 1 0 D1 1783275 TACK group 0.07 1 0 P 651137 Thaumarchaeota 0.07 1 0 C 1643678 Nitrososphaeria 0.07 1 0 O 1033996 Nitrososphaerales 0.07 1 0 F 1033997 Nitrososphaeraceae 0.07 1 0 G 1826864 Candidatus Nitrosocosmicus 0.07 1 1 S 1798806 Candidatus Nitrosocosmicus franklandus