We're thrilled to announce the return of our RNA-Seq Data Analysis Workshop in March 2024!...
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RNA-Seq Data Analysis Workshop (March 11 - 14, 2024 in Berlin, Germany)
Exciting News from ecSeq Bioinformatics GmbH!
We're thrilled to announce the return of our RNA-Seq Data Analysis Workshop in March 2024!... -
creating GFF file from refernce fasta
HI,
I am working a flatworm for which the reference genome is not well characterized. I found the refernece trancriptome for my species... -
FPKM values differ for sample sample between comparisons?
Hi I have three biological samples (lets call them Sample_A-C)that I want to find DEGs between. Firstly, I'm performing pairwise comparisons between samples... -
RPKM threshold estimation
Dear All,
I have a doubt in the calculation of False postitive rate while checking for FPKM threshold in a RNAseq experiment.
... -
How to convert mapped ESTs to genome information into transcripts?
Hello, I am very confused, I have RNA-seq data and I have mapped it to my assembled genome (still a few hundred contigs) so I have got about 20000 mapped... -
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:... -
RNAseq quantification - Velvet assembler
Hi
we are using the Velvet assembler plugin in Geneious Server and were able to generate ca. 50,000 contigs from ca. 120 Mio paired reads... -
Quantifying antisense transcription from non-strand Specific RNA seq
Hello All,
I would like to learn more about how I can use non-strand specific RNA seq data to quantify antisense transcripts in mouse genome?... -
pileup file symbols "<" and ">"
Hi all,
I have some problems with my pileup file. I used Tophat to map my RNA-seq reads and samtools mpileup to generate my output file.... -
A really bad library?
Hi guys,
I am a beginner in the data analysis of experiments RNASeq.
I am currently trying to align reads (36 bp) from an RNASeq experiment... -
TopHat fails to catch error thrown by Bowtie, gives incomplete results
Hi,
I've recently discovered a strange behaviour in TopHat: it can sometimes give incomplete (or even incorrect) results, due to an error...
