Mate paires alignment

Hello,

I would like to ask how the mate paired reads from sequencing alignment to the reference genome.

Thanks

alignment

• 1,315 views • link

written 8.8 years ago by nickmarinakis92 •

can you be more specific?

• 0 views • link

written 8.8 years ago by Medhat

You can find many past threads about mate-pair data alignment on biostars. What exactly are you looking for?

• 0 views • link

written 8.8 years ago by GenoMax

0 answers

No answers yet.

More posts like this

IDT xGen Exome Research Panel v2 vs Twist Human exome core
written 5.4 years ago by nickmarinakis92 •

Hello, I would like to ask which of the following NGS kits for exome Sequencing is the best. Could someone have a comparison between them? …
Remove duplicate reads for bisulfite sequencing reads
written 5.5 years ago by qwzhang0601

Hello: I wonder whether there are tools to remove duplicate bisulfite sequencing reads (e.g, those from PCR) from raw fastq files without alignment? I also …
BWA-MEM - Improperly Paired Reads
written 5.9 years ago by mglasena •

After aligning paired-end 100bp reads to a reference genome, I am getting very low properly paired percentage: 369208441 0 total (QC-passed reads + QC-failed reads) …
Can two mates have different file size?
written 8.0 years ago by marongiu.luigi

Hello I wanted to ask if it is possible for two paired files -- from paired end sequencing -- to have a different byte size, …
PCR duplicates in RNASeq
written 9.0 years ago by Prakash

Hello Bio stars, I have small query regarding identification and removal of PCR duplicates from RNASeq data. The Tophat2 alignment stats calculated from samtool flagstat …
BWA mem paired end vs single end shows unusual flagstat summary
written 9.5 years ago by rrdavis •

I used BWA mem to align some Miseq (2X300bp) reads to a human reference expecting very low mapping since human reads would be considered contaminants. …
Determining Paired-end or Mate-pair insert length in De Novo Sequencing
written 10.0 years ago by sameedmsiddiqui •

Hello, I have a few questions regarding mate-pair and paired end sequences: 1. Does one have to know the *exact* length of the insert for …
How to generate contigs from bam alignment
written 11.0 years ago by goubert.clement •

Hi all, I am currently trying to perform a new assembly using paired and mate paired reads. I first mapped my paired-end on a reference …
SOLiD paired end reads mapping problems
written 11.6 years ago by MiguelMorard •

Hello, I have Solid paired end reads (F3, F5) from DNA-Seq I want to map on a reference genome (yeast). I used Bowtie with the …
Paired-End Reads Alignment For Variant Calling ?
written 13.1 years ago by newDNASeqer

<p>I'm trying to do variant calling (SNPs, Indels) from exome-sequencing data, and the sequencing was done with paired end reads. I would like to use …