Changes

From Genome Analysis Wiki
Jump to: navigation, search
GotCloud BAM Index File
We need to add these BAMs to our index
* Append the bam.index from the pre-aligned BAMs to the one you generated from the alignment pipeline
** '''Be sure to do this command just once'''
cat ${SS}/bams/bam.index >> ${OUT}/bam.index
* ">>" will append to the file that follows it
* '''Be sure to do this command just once'''
** Check that your BAM index is the correct size
**:<pre>wc -l ${OUT}/bam.index</pre>

Navigation menu