Is it possible to obtain the mapping percent from .fastq file?
If I do the following:
grep "@HISEQ" -c file.fastq...
8 results in 0.0028 seconds.
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Determine mapping percentage from .fastq file
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BBMap pileup questions
I am interested in metrics that summarise coverage from my BAM file. I came across BBMap pileup which does a decent job. But I have a couple of questions.... -
BBMap pileup questions
I am interested in metrics that summarise coverage from my BAM file. I came across BBMap pileup which does a decent job. But I have a couple of questions.... -
STAR vs tophat2 - mapping reads to long exons
Hi,
I have some RNA-Seq from the fruit fly, where we test the differential gene expression of several knock-outs and developmental stages.... -
fastq_screen vs. tophat2
Hi all,
I was wondering about why I get a relatively low percentage of reads mapped to my genome.
We are running an experiment of... -
Easiest way to compute RNA-Seq mapping stats (exons, introns, intergenic)?
I aligned RNA-Seq data to a genome using tophat2. Now I have the bam file and I am looking for a straight-forward way to produce mapping statistics -... -
Best programs/methods for looking at mapped coverage? (Mapping whole genome data)
Greetings.
I'm interested in looking, in detail, at the mapped coverage for NGS short read data onto a reference, using whole genome data.... -
Region of zero coverage
Dear all,
I have been sequencing some samples and found something that is new for me.
After sequencing using Miseq, I usually align reads...
