X-Git-Url: https://git.donarmstrong.com/?p=rsem.git;a=blobdiff_plain;f=rsem-prepare-reference;h=80a954942031c88f6e6e50eb3fd84c86793ad20a;hp=78743e946f2b2f1b6b02ecdb6cbeeaaebdf3c70e;hb=4a5e5138d3fc409e7ade5c14de7689612290f74f;hpb=635ca2939cfb1f519f19e9dec072ddd05e9fb450

diff --git a/rsem-prepare-reference b/rsem-prepare-reference
index 78743e9..80a9549 100755
--- a/rsem-prepare-reference
+++ b/rsem-prepare-reference
@@ -155,7 +155,7 @@ Each line of <file> should be of the form:
 gene_id transcript_id
 
 with the two fields separated by a tab character.
- 
+
 If you are using a GTF file for the "UCSC Genes" gene set from the UCSC Genome Browser, then the "knownIsoforms.txt" file (obtained from the "Downloads" section of the UCSC Genome Browser site) is of this format.
 
 If this option is off, then the mapping of isoforms to genes depends on whether the --gtf option is specified.  If --gtf is specified, then RSEM uses the "gene_id" and "transcript_id" attributes in the GTF file.  Otherwise, RSEM assumes that each sequence in the reference sequence files is a separate gene.