Hi,
I have been reading Seqanswers for quite some time, but this my first question.
Does someone has experience with BAM...
8 results in 0.0032 seconds.
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UCSC Encode files issue with MAPQ and Flags
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Compare Bowtie2 and BWA summary
How to compare bowtie and bwa summary?
Here is the output of bowtie2:
28115453 reads; of these:
28115453 (100.00%) were paired;... -
SAM primary FLAG from Tophat2
Does anyone how Tophat2.0.11 chooses SAM primary (i.e. non 0x100) alignment? Is it the first in terms of coordinates, first depending on random seed of... -
Shortlisting genes from various gene prediction methods based on Blast results.
Hey Folks,
Background: I am trying to shortlist the list of genes predicted by different gene prediction methods. For this i am considering... -
How can I filter out reads who or whose pairs are unmapped in samtools?
How can I filter out reads who or whose pairs are unmapped in samtools?
I tried using "samtools view -F 4 -F 8 SAMFILE". However,... -
BAM file containing ALL reads, next step?
Hi guys, I'm new to this forum and new to ChIP-seq so forgive my ignorance and the broadness of my question.
I recently obtained two bam... -
Samtools: Paired reads with no Ref. name of the mate
Hi,
In some bam files from paired reads data I see some of them with the field RNEXT or reference of the mate equal to "*". In these... -
BAM flags using "OR"
I'm trying to extract all reads where both are mapped (but not necessarily in the proper orientation/size) and remove PCR duplicates.
I tried ...
