Dear all
im trying to trim paired-end RRBS illumina reads using Trim galore. as far as i understood, paired end reads must be trimmed...
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trimming paired end reads using Trim galore
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Paired end SAM to single end
I am performing PAR-CLIP which is typically done using single end however we ran paired because it fit in with our in house set up.
I've... -
RIP-seq library prep - single or paired-end reads?
Hi all,
I'm going to be helping a colleague with analyzing some RIP-seq data. We just had a question regarding the library prep protocol. Specifically,... -
is bedtools paired-end aware?
Hi all,
This is probably a rather basic question but here it goes. Up until recently I have been doing RNA-seq using single-ended sequence reads.... -
Trim off variable length 'N' strings at the end of the read
Hi,
I need to remove all 'N' strings in a fastq file. I have paired end files and there are N strings at the end of some reads of variable... -
TopHat clarification for pair-end sequences
I am running paired-end RNASeq data through a Tuxedo pipeline. In the TopHat manual, it states that for the <reads1_1[,...,readsN_1]> input "this... -
overlapping in PE library sequencing
Hello,
I'd like to do de novo assembling of a fungal genome(~20 Mbp).
I will use Miseq data for the assembling.
I found... -
Miseq v2 PE library length for Allpaths-LG
Hello,
I'd like to use ALLPATHS-LG for de novo assembling of a fungal genome
(~20 Mbp). I will use Miseq data for the assembling.... -
Aligning mate-less reads from a paired end read
I've been trimming paired reads with DynamicTrim based on phred scores and using LengthSort to separate out those under 15 bases. LengthSort separates... -
program which can make a pair end to have equal number of sequence
i have a PE100, the problem is some tiles of read 2 are corrupted and it caused un even number of reads in read 1 and read 2. Are there any programs which... -
Question about paired end reads
Hi,
I have a slightly weird question about paired end reads. I will try to explain as best as I can:
For simplicity, let's...
