Hi,
Is there an official way to run BWA0.6.1 for fastq files with the Illumina 1.8+ encoding for quality?
From my reading...
8 results in 0.0030 seconds.
-
BWA for Illumina 1.8+ encoding
-
Bowtie2: mapping qualities in paired end mode different with the single mode
Hello,
I am using Bowtie2 for paired-end alignments and I noticed a strange behavior: the mapping quality scores are not the same if the... -
samtools mpileup
Hey guys,
i`m new to the field of ngs and have a question regarding the mpileup option -M:
-M INT cap mapping quality at INT... -
Minimal mapping quality as parameter to call a variant
Hi,
I am working with Solid 5500XL in exome sequencing profiling from blood-tumour pairs, using Lifescope to align and do the variant calling.... -
TopHat and mapping QV
Hi,
I'm using TopHat v1.4.1 in order to analyze paired-end reads (75-35) in color space (RNA-Seq analysis).
My tipical command line is:... -
Question about BWA mapping quality
I need to verify that BWA takes into account mate pair data, and the BWA paper that I found seems to be somewhat ambiguous in how it derives mapping quality... -
BWA mapping quality scores?
Does anyone know if BWA gives ambiguous reads a mapping quality score of 0? I believe I have read somewhere that it does, but I can't find this anywhere... -
MAQ Scores & Quantify maq alignments?
Hello,
Is there a way to discern how well reads are aligning to a reference assembly using the mapping quality scores?
...
