Hello everyone, I am an undergrad and newbie to bioinformatics. Recently I encountered a problem that I could not solve on myself.
A pileup file was generated by this command: samtools mpileup -Q0 -f ucsc.hg19.fasta t.sam > t.pileup . There are 9 alignment items in that sam file, but only 4 of them are shown in the pileup file. Both the sam file and the pileup file are attached. Sum of them are smaller than 1MB. I really hope you could help me and tell me why whose 5 alignment items are abandoned by samtools. Sincere appreciation. Daniel Chau
t.pileup
Description: Binary data
t.sam
Description: Binary data
------------------------------------------------------------------------------
_______________________________________________ Samtools-help mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/samtools-help
