Daniel:Notebook/GenomeMiner/2013-7-22: Difference between revisions

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(Created page with "=HL155= Back to Calendar '''Converting Sam to Bam''' samtools view -bS hrcp_fullindex_samout.sam > hrcp_hl155.bam")
 
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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

Back to Calendar

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