Daniel Lundin
commited on
Commit
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ce0800a
1
Parent(s):
a2415c2
Adding smaller NCBI files
Browse files
testdata/assembly_summary_genbank.txt
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# See ftp://ftp.ncbi.nlm.nih.gov/genomes/README_assembly_summary.txt for a description of the columns in this file.
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# assembly_accession bioproject biosample wgs_master refseq_category taxid species_taxid organism_name infraspecific_name isolate version_status assembly_level release_type genome_rep seq_rel_date asm_name submitter gbrs_paired_asm paired_asm_comp ftp_path excluded_from_refseq relation_to_type_material asm_not_live_date
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GCA_000001215.4 PRJNA13812 SAMN02803731 reference genome 7227 7227 Drosophila melanogaster latest Chromosome Major Full 2014/08/01 Release 6 plus ISO1 MT The FlyBase Consortium/Berkeley Drosophila Genome Project/Celera Genomics GCF_000001215.4 identical https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/000/001/215/GCA_000001215.4_Release_6_plus_ISO1_MT na
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GCA_003697165.2 PRJNA472652 SAMN10252913 na 866789 562 Escherichia coli DSM 30083 = JCM 1649 = ATCC 11775 strain=ATCC 11775 latest Complete Genome Major Full 2018/12/20 ASM369716v2 University of Arkansas for Medical Sciences GCF_003697165.2 identical https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/003/697/165/GCA_003697165.2_ASM369716v2 assembly designated as neotype na
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GCA_004296515.1 PRJDB5646 SAMD00080338 representative genome 1971488 1971488 endosymbiont of Pachyrhynchus infernalis NARPIN1 latest Complete Genome Major Full 2017/10/21 ASM429651v1 The Open University of Japan GCF_004296515.1 identical https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/004/296/515/GCA_004296515.1_ASM429651v1 na
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GCA_004296495.1 PRJDB5643 SAMD00080335 representative genome 1972133 1971485 endosymbiont of Rhynchophorus ferrugineus NARRFE1 latest Complete Genome Major Full 2017/10/21 ASM429649v1 The Open University of Japan GCF_004296495.1 identical https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/004/296/495/GCA_004296495.1_ASM429649v1 na
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testdata/assembly_summary_refseq.txt
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# See ftp://ftp.ncbi.nlm.nih.gov/genomes/README_assembly_summary.txt for a description of the columns in this file.
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# assembly_accession bioproject biosample wgs_master refseq_category taxid species_taxid organism_name infraspecific_name isolate version_status assembly_level release_type genome_rep seq_rel_date asm_name submitter gbrs_paired_asm paired_asm_comp ftp_path excluded_from_refseq relation_to_type_material asm_not_live_date
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GCF_000001215.4 PRJNA164 SAMN02803731 reference genome 7227 7227 Drosophila melanogaster latest Chromosome Major Full 2014/08/01 Release 6 plus ISO1 MT The FlyBase Consortium/Berkeley Drosophila Genome Project/Celera Genomics GCA_000001215.4 identical https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/001/215/GCF_000001215.4_Release_6_plus_ISO1_MT na
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GCF_000001405.40 PRJNA168 reference genome 9606 9606 Homo sapiens latest Chromosome Patch Full 2022/02/03 GRCh38.p14 Genome Reference Consortium GCA_000001405.29 different https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/001/405/GCF_000001405.40_GRCh38.p14 na
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GCF_000001635.27 PRJNA169 reference genome 10090 10090 Mus musculus strain=C57BL/6J latest Chromosome Major Full 2020/06/24 GRCm39 Genome Reference Consortium GCA_000001635.9 identical https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/001/635/GCF_000001635.27_GRCm39 na
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GCF_000001735.4 PRJNA116 SAMN03081427 reference genome 3702 3702 Arabidopsis thaliana ecotype=Columbia latest Chromosome Minor Full 2018/03/15 TAIR10.1 The Arabidopsis Information Resource (TAIR) GCA_000001735.2 identical https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/001/735/GCF_000001735.4_TAIR10.1 na
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GCF_000001905.1 PRJNA70973 SAMN02953622 AAGU00000000.3 representative genome 9785 9785 Loxodonta africana ISIS603380 latest Scaffold Major Full 2009/07/15 Loxafr3.0 Broad Institute GCA_000001905.1 different https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/001/905/GCF_000001905.1_Loxafr3.0 na
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GCF_000002035.6 PRJNA13922 SAMN06930106 reference genome 7955 7955 Danio rerio strain=Tuebingen latest Chromosome Major Full 2017/05/09 GRCz11 Genome Reference Consortium GCA_000002035.4 different https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/002/035/GCF_000002035.6_GRCz11 na
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GCF_000002075.1 PRJNA209509 SAMN02953658 AASC00000000.3 representative genome 6500 6500 Aplysia californica F4 #8 latest Scaffold Major Full 2013/05/15 AplCal3.0 Broad Institute GCA_000002075.2 different https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/002/075/GCF_000002075.1_AplCal3.0 na
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GCF_000002235.5 PRJNA13728 SAMN00829422 AAGJ00000000.6 representative genome 7668 7668 Strongylocentrotus purpuratus Spur 01 latest Scaffold Major Full 2019/09/06 Spur_5.0 Baylor College of Medicine GCA_000002235.4 different https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/002/235/GCF_000002235.5_Spur_5.0 na
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testdata/ncbi_assembly_summaries.txt
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https://github.com/nf-core/test-datasets/raw/magmap/testdata/assembly_summary_genbank.txt
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https://github.com/nf-core/test-datasets/raw/magmap/testdata/assembly_summary_refseq.txt
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