Mercurial > repos > jjohnson > arriba_download_reference
comparison tool-data/arriba_indexes.loc.sample @ 0:7345cb1bb772 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/arriba commit c1d05da7c2c76feae94cbc640be7b010f31397d2-dirty"
| author | jjohnson |
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| date | Fri, 11 Feb 2022 19:09:19 +0000 |
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| -1:000000000000 | 0:7345cb1bb772 |
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| 1 #This is a sample file distributed with Galaxy that enables tools | |
| 2 #to use a directory of Ariba data files. | |
| 3 #The Arriba script download_references.sh retrieves a genome assembly fasta | |
| 4 #and a related GTF annotation file, then builds a STAR index. | |
| 5 #You will need to create these data files and then create a | |
| 6 #arriba_indexes.loc similar to this one (store it in this | |
| 7 #directory) that points to the directories in which those files are stored. | |
| 8 #The arriba_indexes.loc file has this format (longer white space | |
| 9 #characters are TAB characters): | |
| 10 # | |
| 11 #<unique_build_id> <display_name> <genome_fasta_path> <genome_gtf_path> <STAR_index_path> | |
| 12 # | |
| 13 #Note that STAR indices can become quite large. | |
| 14 # | |
| 15 #<unique_build_id> <display_name> <genome_fasta_path> <genome_gtf_path> <STAR_index_path> | |
| 16 #GRCh38+ENSEMBL93 GRCh38+ENSEMBL93 /depot/GRCh38+ENSEMBL93/genome.fa /depot/GRCh38+ENSEMBL93/genome.gtf /depot/GRCh38+ENSEMBL93/STAR_index/ | |
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