Mercurial > repos > iuc > length_and_gc_content

annotate tool-data/all_fasta.loc.sample @ 2:03f37e93a3ea draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 7b6b07d22f3e6fed77b2c237de2b0d96fa939711"
author iuc
date Fri, 11 Mar 2022 14:07:42 +0000
parents 5f22a5dbc280
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
1
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
1 #This file lists the locations and dbkeys of all the genome and transcriptome fasta files
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
2 #under the "genome" directory (a directory that contains a directory
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
3 #for each build. This file has the format (white space characters are
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
4 #TAB characters):
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
5 #
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
6 #<unique_build_id> <dbkey> <display_name> <file_path>
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
7 #
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
8 #So, all_fasta.loc could look something like this:
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
9 #
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
10 #apiMel4.5 apiMel4.5 Honeybee (Apis mellifera): apiMel4.5 /path/to/genome/apiMel4.5/apiMel4.5.fa
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
11 #hg38canon hg38 Human (Homo sapiens): hg38 Canonical /path/to/genome/hg38/hg38canon.fa
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
12 #hg38full hg38 Human (Homo sapiens): hg38 Full /path/to/genome/hg38/hg38full.fa
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
13 #hg38full.90 hg38 Human (Homo sapiens): hg38 Full Trans v90 /path/to/genome/hg38/hg38fulltrans.fa
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
14
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
15 #Your all_fasta.loc file should contain an entry for each individual
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
16 #fasta file. So there will be multiple fasta files for each build,
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
17 #such as with hg38 above.
5f22a5dbc280 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/length_and_gc_content commit 0a56599c36b4968095ec5a3cb589f94fb139466c
iuc
parents:
diff changeset
18