Significant Difference of the File Size between csorted and nsorted BAM file
Any one found the file size of the sorted bam files by samtools -c and samtools -n have quite big difference, I notice for the same raw bam file, samtools -n sorted bam is usually 2-times larger than samtools -c. What's the main reason for the difference?
Thanks.
• 1,419 views
•
link
updated
by
Ram
•
written
by
Shicheng Guo
•
written
by
Shicheng Guo
1 answer
New version of samtools does not have a -c option so you may want to modify the question to explicitly say name and coordinate sorted BAM's.
See James Bonfield's answer in this thread.
Log in to answer this question.
More posts like this
-
BAM file became smaller after merging
written by kimmitzka •
-
MACS2 does not giving same result before and after chromosome extraction from bam file
written by buffealo •
-
Sorting an already sorted file with samtools reduced its size
written by shhsvri •
-
what's the difference between picard MergeBamAlignment and samtools merge
written by Yingzi Zhang
-
Size of cancer/normal sequence data
written by Gene_MMP8
-
Blueprint WGBS data explanation
written by Shicheng Guo
-
HTSeq-count output files sizes are always 10mb
written by cr.balladares.m •
-
Merge and fixmate of multiple BAM files generated from pair-end DNA sequences
written by lisadavic66 •
-
convert bam file to raw read count file for DESeq or EdgeR
written by illinois.ks
-
Different Md5Sum Id For Same Bam File And "Sort" Opertion In Samtools.
written by C Shao •
