Hi all,
I have had an issue where my first ever Miseq run was great quality: 100k reads per sample with a nice distribution and then after...
40 results in 0.0026 seconds.
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discrepancy in miseq runs due to sample prep protocol?
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Which PacBio ouputs use to do novo assembly?
Hello, I was given all the outputs of the result of a whole genome sequencing of a bacteria, and there is a lot of them and I don’t understand which... -
Problem with Bowtie alignment
Novice here. I tried to align miRNA sequencing data (Illumina) with mature miRNA from mirbase.org database using Bowtie. Reads are adapter trimmed and... -
StringTie Output
Hello all,
I am an RNA-Seq newbie who is having some issues with the StringTie output. I am currently using StringTie on Galaxy with the... -
samtools mpileup possible bug
Hello,
I noticed that last sample (last 3 columns) in mpileup format behave strangely in positions with low base quality (< 13). It looks... -
How to Print Statistics from Python filtering script
Hello all,
I have the following python script which will filter paired-end fastq read data based on nucleotide complexity with a user... -
Recommended output or reads for 16s metagenomic
I am planning to use Ion 16S Metagenomics Kit (7 hypervariable region) and Ion PGM 400bp for my 16s metagenomic project. Can anyone suggesting how many... -
Confusion about single end vs paired end read output on Illumina HiSeq
Hello,
I think I'm confused about read output for Illumina's HiSeq. I think I'm not understanding why it is possible to get 150M single... -
MiSeq Run with low Cluster PF Help
Hi Everyone I am newbie here and glad I found this wonderful and informative forum. I was wondering if some of you guys can help me out with my MiSeq... -
Trinity output
Hi,
Trinity outputs to my understanding components and isoforms, or I think now they call them genes and transcripts, so can someone explain to...Last edited by illinu; 11-13-2014, 05:57 AM. -
Getting the part of a genome that was NOT covered by a samples reads
I have a bunch of genomes and sample reads and am looking for a way (software and method) that I can do a sequence alignment and get an output of the... -
Visualizing Bowtie results in Galaxy
Hello,
I have just done my very first run of bowtie, via galaxy. I want to get an idea of whether it worked at all... but I have no idea... -
Newbler GSmapper output numMappedReads 2 results
Hello, I am wondering why I get two very different results in the metrics of the Newbler GSmapper
numMappedReads = 362295,... -
Can someone explain the output of BIC-seq?
Hi,
I'm using BIC-seq to identify CNVs in whole genome data. While I have been able to generate the output successfully, I'm having more... -
contradiction in cufflinks output
Dear all,
- my cufflinks (cufflinks v2.0.2) output seems to contradict itself. An example is transcript ENST00000354171.8. There are three...
