don't use git-lfs (it's not ready, bugs created an unworkable state),…

… remove bt2 indicies, add support for mm10 and hg38 and use them bu default, new script to generate bt2 indiceis from scratch, update vPlotIndex script
greysAcademicCode · Jun 15, 2015 · e9f63c6 · e9f63c6
1 parent 6bd67cd
commit e9f63c6
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Showing 37 changed files with 204,053 additions and 2,338 deletions.
diff --git a/.gitattributes b/.gitattributes
diff --git a/.gitconfig b/.gitconfig
diff --git a/.gitignore b/.gitignore
@@ -4,3 +4,4 @@ inputData/
 *.zip
 *.fa
 *.fa.gz
+*.bt2
diff --git a/bowtie2Index/hg19/female/buildIndex.sh b/bowtie2Index/hg19/female/buildIndex.sh
diff --git a/bowtie2Index/hg19/female/error.log b/bowtie2Index/hg19/female/error.log
diff --git a/bowtie2Index/hg19/female/hg19female.1.bt2 b/bowtie2Index/hg19/female/hg19female.1.bt2
diff --git a/bowtie2Index/hg19/female/hg19female.2.bt2 b/bowtie2Index/hg19/female/hg19female.2.bt2
diff --git a/bowtie2Index/hg19/female/hg19female.3.bt2 b/bowtie2Index/hg19/female/hg19female.3.bt2
diff --git a/bowtie2Index/hg19/female/hg19female.4.bt2 b/bowtie2Index/hg19/female/hg19female.4.bt2
diff --git a/bowtie2Index/hg19/female/hg19female.rev.1.bt2 b/bowtie2Index/hg19/female/hg19female.rev.1.bt2
diff --git a/bowtie2Index/hg19/female/hg19female.rev.2.bt2 b/bowtie2Index/hg19/female/hg19female.rev.2.bt2
-Original file line number
+Diff line change
@@ Expand Up / @@ -4,3 +4,4 @@ inputData/ @@
     *.zip
     *.fa
     *.fa.gz
+    *.bt2