Mercurial > repos > takakoron > distribution_of_dna_polymorphism
comparison Visualize_Distrubution_of_polymorphism.loc.sample @ 5:9aa9da228b8c draft default tip
planemo upload
author | takakoron |
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date | Mon, 11 Apr 2016 10:12:18 -0400 |
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4:2495b1506d06 | 5:9aa9da228b8c |
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1 #This is a sample file distributed with Galaxy that enables tools | |
2 #to use a directory of BWA indexed sequences data files. You will need | |
3 #to create these data files and then create a bwa_index.loc file | |
4 #similar to this one (store it in this directory) that points to | |
5 #the directories in which those files are stored. The bwa_index.loc | |
6 #file has this format (white space characters are TAB characters): | |
7 # | |
8 #<build> <file_base> | |
9 # | |
10 #So, for example, if you had phiX indexed stored in | |
11 #/depot/data2/galaxy/phiX/base/, | |
12 #then the bwa_index.loc entry would look like this: | |
13 # | |
14 #phiX /depot/data2/galaxy/phiX/base/phiX.fa | |
15 # | |
16 #and your /depot/data2/galaxy/phiX/base/ directory | |
17 #would contain phiX.fa.* files: | |
18 # | |
19 #-rw-r--r-- 1 james universe 830134 2005-09-13 10:12 phiX.fa.amb | |
20 #-rw-r--r-- 1 james universe 527388 2005-09-13 10:12 phiX.fa.ann | |
21 #-rw-r--r-- 1 james universe 269808 2005-09-13 10:12 phiX.fa.bwt | |
22 #...etc... | |
23 # | |
24 #Your bwa_index.loc file should include an entry per line for each | |
25 #index set you have stored. The "file" in the path does not actually | |
26 #exist, but it is the prefix for the actual index files. For example: | |
27 # | |
28 #phiX /depot/data2/galaxy/phiX/base/phiX.fa | |
29 #hg18 /depot/data2/galaxy/hg18/base/hg18.fa | |
30 Oryza sativa(IRGSPbuild5) /disk/reference/ddbj/distribution_of_polymorphism/o_sativa.build5.fa | |
31 Oryza sativa(IRGSPbuild1.0) /disk/reference/ddbj/distribution_of_polymorphism/o_sativa.build1.0.fa | |
32 Arabidopsis thaliana(TAIR10) /disk/reference/ddbj/distribution_of_polymorphism/TAIR10.fa | |
33 Zea mays B73(RefGen_v2) /disk/reference/ddbj/distribution_of_polymorphism/ZmB73.RefGen2.fa | |
34 Sorghum bicolor(phytozome_v9.0_Sbicolor_v1.4) /disk/reference/ddbj/distribution_of_polymorphism/Sorbi.Sbi1.4.fa | |
35 Sorghum bicolor(phytozome_v9.0_Sbicolor_v2.1) /disk/reference/ddbj/distribution_of_polymorphism/Sorbi.Sbi12.1.fa |