modified chromosome names

pachterlab · Jan 29, 2018 · a91e512 · a91e512
1 parent 2da9184
commit a91e512
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Showing 2 changed files with 26 additions and 1 deletion.
diff --git a/test/Snakefile b/test/Snakefile
@@ -29,5 +29,5 @@ rule kallisto_quant:
         "-b 30 "
         "-o {output[0]} "
         "--genomebam --gtf {GTF} "
-        "--chromosomes hg38.chrom.sizes "
+        "--chromosomes chrom.txt "
         "{input[0]} {input[1]}"
diff --git a/test/chrom.txt b/test/chrom.txt
@@ -0,0 +1,25 @@
+1	248956422
+2	242193529
+3	198295559
+4	190214555
+5	181538259
+6	170805979
+7	159345973
+8	145138636
+9	138394717
+10	133797422
+11	135086622
+12	133275309
+13	114364328
+14	107043718
+15	101991189
+16	90338345
+17	83257441
+18	80373285
+19	58617616
+20	64444167
+21	46709983
+22	50818468
+X	156040895
+Y	57227415
+M	16569