Daniel:Notebook/GenomeMiner/2013-7-22: Difference between revisions
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>Djacobse (Created page with "=HL155= Back to Calendar '''Converting Sam to Bam''' samtools view -bS hrcp_fullindex_samout.sam > hrcp_hl155.bam") |
>Djacobse No edit summary |
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[[Daniel:Notebook/GenomeMiner|Back to Calendar]] | [[Daniel:Notebook/GenomeMiner|Back to Calendar]] | ||
'''Converting Sam to Bam''' | '''1. Converting Sam to Bam''' | ||
samtools view -bS hrcp_fullindex_samout.sam > hrcp_hl155.bam | samtools view -bS hrcp_fullindex_samout.sam > hrcp_hl155.bam | ||
'''2. Sorting BAM file''' | |||
samtools sort hrcp_hl155.bam hrcp_sorted_hl155 | |||
''Alternate Pipeline'' (Can be used instead of 1 and 2) | |||
samtools view -bS hrcp_fullindex_samout.sam | samtools sort - hrcp_sorted_hl155 |
Revision as of 18:30, 22 July 2013
HL155
1. Converting Sam to Bam
samtools view -bS hrcp_fullindex_samout.sam > hrcp_hl155.bam
2. Sorting BAM file
samtools sort hrcp_hl155.bam hrcp_sorted_hl155
Alternate Pipeline (Can be used instead of 1 and 2)
samtools view -bS hrcp_fullindex_samout.sam | samtools sort - hrcp_sorted_hl155