Mercurial > repos > iuc > snapatac2_plotting
annotate tool-data/all_fasta.loc.sample @ 6:1ac4a5f05f33 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
| author | iuc |
|---|---|
| date | Tue, 25 Nov 2025 16:41:12 +0000 |
| parents | |
| children |
| rev | line source |
|---|---|
|
6
1ac4a5f05f33
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
iuc
parents:
diff
changeset
|
1 #This file lists the locations and dbkeys of all the genome and transcriptome fasta files |
|
1ac4a5f05f33
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
iuc
parents:
diff
changeset
|
2 #under the "genome" directory (a directory that contains a directory |
|
1ac4a5f05f33
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
iuc
parents:
diff
changeset
|
3 #for each build. This file has the format (white space characters are |
|
1ac4a5f05f33
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
iuc
parents:
diff
changeset
|
4 #TAB characters): |
|
1ac4a5f05f33
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
iuc
parents:
diff
changeset
|
5 # |
|
1ac4a5f05f33
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
iuc
parents:
diff
changeset
|
6 #<unique_build_id> <dbkey> <display_name> <file_path> |
|
1ac4a5f05f33
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
iuc
parents:
diff
changeset
|
7 # |
|
1ac4a5f05f33
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
iuc
parents:
diff
changeset
|
8 #So, all_fasta.loc could look something like this: |
|
1ac4a5f05f33
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
iuc
parents:
diff
changeset
|
9 # |
|
1ac4a5f05f33
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
iuc
parents:
diff
changeset
|
10 #apiMel4.5 apiMel4.5 Honeybee (Apis mellifera): apiMel4.5 /path/to/genome/apiMel4.5/apiMel4.5.fa |
|
1ac4a5f05f33
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
iuc
parents:
diff
changeset
|
11 #hg38canon hg38 Human (Homo sapiens): hg38 Canonical /path/to/genome/hg38/hg38canon.fa |
|
1ac4a5f05f33
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
iuc
parents:
diff
changeset
|
12 #hg38full hg38 Human (Homo sapiens): hg38 Full /path/to/genome/hg38/hg38full.fa |
|
1ac4a5f05f33
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
iuc
parents:
diff
changeset
|
13 #hg38full.90 hg38 Human (Homo sapiens): hg38 Full Trans v90 /path/to/genome/hg38/hg38fulltrans.fa |
|
1ac4a5f05f33
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
iuc
parents:
diff
changeset
|
14 |
|
1ac4a5f05f33
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
iuc
parents:
diff
changeset
|
15 #Your all_fasta.loc file should contain an entry for each individual |
|
1ac4a5f05f33
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
iuc
parents:
diff
changeset
|
16 #fasta file. So there will be multiple fasta files for each build, |
|
1ac4a5f05f33
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/snapatac2 commit e0f59fae19e57f54ae0c351a16dd1805d12aba1d
iuc
parents:
diff
changeset
|
17 #such as with hg38 above. |
