Mercurial > repos > takakoron > distribution_of_dna_polymorphism
changeset 3:fab40d775877 draft
Uploaded
| author | takakoron |
|---|---|
| date | Mon, 04 Apr 2016 23:03:21 -0400 |
| parents | ee443d18872b |
| children | 2495b1506d06 |
| files | Visualize_Distrubution_of_polymorphism.loc |
| diffstat | 1 files changed, 35 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Visualize_Distrubution_of_polymorphism.loc Mon Apr 04 23:03:21 2016 -0400 @@ -0,0 +1,35 @@ +#This is a sample file distributed with Galaxy that enables tools +#to use a directory of BWA indexed sequences data files. You will need +#to create these data files and then create a bwa_index.loc file +#similar to this one (store it in this directory) that points to +#the directories in which those files are stored. The bwa_index.loc +#file has this format (white space characters are TAB characters): +# +#<build> <file_base> +# +#So, for example, if you had phiX indexed stored in +#/depot/data2/galaxy/phiX/base/, +#then the bwa_index.loc entry would look like this: +# +#phiX /depot/data2/galaxy/phiX/base/phiX.fa +# +#and your /depot/data2/galaxy/phiX/base/ directory +#would contain phiX.fa.* files: +# +#-rw-r--r-- 1 james universe 830134 2005-09-13 10:12 phiX.fa.amb +#-rw-r--r-- 1 james universe 527388 2005-09-13 10:12 phiX.fa.ann +#-rw-r--r-- 1 james universe 269808 2005-09-13 10:12 phiX.fa.bwt +#...etc... +# +#Your bwa_index.loc file should include an entry per line for each +#index set you have stored. The "file" in the path does not actually +#exist, but it is the prefix for the actual index files. For example: +# +#phiX /depot/data2/galaxy/phiX/base/phiX.fa +#hg18 /depot/data2/galaxy/hg18/base/hg18.fa +Oryza sativa(IRGSPbuild5) /disk/reference/ddbj/distribution_of_polymorphism/o_sativa.build5.fa +Oryza sativa(IRGSPbuild1.0) /disk/reference/ddbj/distribution_of_polymorphism/o_sativa.build1.0.fa +Arabidopsis thaliana(TAIR10) /disk/reference/ddbj/distribution_of_polymorphism/TAIR10.fa +Zea mays B73(RefGen_v2) /disk/reference/ddbj/distribution_of_polymorphism/ZmB73.RefGen2.fa +Sorghum bicolor(phytozome_v9.0_Sbicolor_v1.4) /disk/reference/ddbj/distribution_of_polymorphism/Sorbi.Sbi1.4.fa +Sorghum bicolor(phytozome_v9.0_Sbicolor_v2.1) /disk/reference/ddbj/distribution_of_polymorphism/Sorbi.Sbi12.1.fa