Hello everyone!
I am a 1st year PhD Biochemistry student who is doing NGS for the first time (also the first time in our research group)....
22 results in 0.0023 seconds.
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NGS data analysis - help
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Collapsed reads vs overlapping paired-end reads !!??
Hello all!
Case:
We did a Sequencing of three yeast strains (not s.cerevisiae) and with reference genome available!... -
Aligning paired end reads against a BAC
Hello All,
This is a question about annotation improvement using paired end RNA-seq reads. The following is the dataset I am working with.... -
Looking for structural variants with paired-end sequencing data
Hello community,
I am dealing with 150bp, paired-end, Illumina sequencing data from a relatively small bacterial genome (around 2MB). I... -
downsampling read pairs from a bam file
Hi guys,
I am trying to downsample a bam file with paired reads. Initially I was using samtools view -s, providing a fraction of reads... -
merge or do not merge overlapping paired-end reads?
Dear all,
I would like to discuss with you, if it is truly meaningful to merge overlapping paired end (PE) reads from Illumina exome or whole...Last edited by evakoe; 07-20-2015, 03:05 AM. Reason: additional argument, added link to another thread -
help settle a methodology discussion.
Hi all,
My boss and I are having a debate on a protocol that I need a little clarity on, and hopefully someone can give the best answer.... -
What is the specific syntax needed for Trans-ABySS to analyze both SE and PE files?
I have been trying for days to get Trans-ABySS to run a set of paired-end and single-end fastq files. The paired in data is stored in two files, one with... -
Bowtie2 paired-end reads, sometimes read 2 is output first
When aligning paired-end reads with Bowtie2 it's supposed to output the alignments on alternating lines: read1, read2; read1, read2; read1, read2; etc.... -
illumina paired-end data
I have paired-end illumina data for some RNA-Seq analysis. There are four fasta files and are named like this.
...HTML Code:XXX_XXXXXX_L001_R1_001.fastq
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Calculating coverage based on full insert size from paired-end data
Hi! all,
I would like to calculate coverage from paired-end data. I can do this with bedtools but I want to make sure of one thing. That... -
Tophat paired-end reads and minimum length
Hello,
I have a few questions about running my paired-end reads through Tophat (using Galaxy).
1) From what I've read on... -
Illumina MiSeq FASTQ files
When receiving two fastq files from Illuminia, are they always considered paired-end reads? -
Different number of cycles for HiSeq PE sequencing
Hello,
I am planning to run a HiSeq 2500 rapid run with a different number of cycles for reads 1 and 2 (e.g. 250 x 50). I know that this... -
SOAP can't align read
HI everyone. I'm new here. I got a problem blocked me for days and plz help me.
I want to use SOAP to align my paired-end reads. command:
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