Mercurial > repos > iuc > scpipe
annotate tool-data/all_fasta.loc.sample @ 5:a3b3ec00bf8f draft default tip
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit fdf7345541065bceabb72dda6a4ce62967cca2e8"
| author | iuc |
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| date | Fri, 26 Feb 2021 22:26:37 +0000 |
| parents | 32e1bfc6b7b2 |
| children |
| rev | line source |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
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1 #This file lists the locations and dbkeys of all the genome and transcriptome fasta files |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
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2 #under the "genome" directory (a directory that contains a directory |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
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3 #for each build. This file has the format (white space characters are |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
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4 #TAB characters): |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
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5 # |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
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6 #<unique_build_id> <dbkey> <display_name> <file_path> |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
|
7 # |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
|
8 #So, all_fasta.loc could look something like this: |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
|
9 # |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
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10 #apiMel3 apiMel3 Honeybee (Apis mellifera): apiMel3 /path/to/genome/apiMel3/apiMel3.fa |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
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11 #hg19canon hg19 Human (Homo sapiens): hg19 Canonical /path/to/genome/hg19/hg19canon.fa |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
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12 #hg19full hg19 Human (Homo sapiens): hg19 Full /path/to/genome/hg19/hg19full.fa |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
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13 #hg19full.87 hg19 Human (Homo sapiens): hg19 Full Trans v87 /path/to/genome/hg19/hg19full.cdna.all.fa |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
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14 |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
|
15 #Your all_fasta.loc file should contain an entry for each individual |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
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16 #fasta file. So there will be multiple fasta files for each build, |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
|
17 #such as with hg19 above. |
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32e1bfc6b7b2
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scpipe commit 8908da9cdd112ae0943dbf1eccb221e84cd99ca7
iuc
parents:
diff
changeset
|
18 # |
