Hi,
we have a 36-samples ChIP-Seq experiment with a very strange GC-content behavior (s. images)
The samples are from yeast. This...
19 results in 0.0031 seconds.
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fastqc shows strange GC content
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low GC% peak in one end of paired end reads
Hi,
I have paired end RNA seq data prepared from Brassica napus using TruSeq kit. After adapter trimming, FastQC shows a second low GC% peak per... -
Transcriptome assembly: Low GC, short contigs, low read alignment
Hi,
Sorry if this is a repeat. I posted earlier but now can't find it under the posts/threads listed under my username...
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Low GC, fragments, low read alignment
I am new to Seqanswers (Hi!) but so far have not yet found a helpful thread for my particular problem.
I am trying to do two de novo assemblies... -
GC content of assembled transcripts
Hi,
I have a transcriptome assembly that is comprised of a metazoan and protist (intracellular symbiont) component. I know from the assemblies... -
List of all sequenced Bacteria and their GC content
Hi everyone,
How is the best way to get a list of all names (full taxonomy if possible) of bacterial strains that were sequenced, plus their GC... -
Difference in GC content between samples
Dear all,
I have a question about GC content in RNA seq. I know that it is not consistent between samples, and this is something to take... -
FastQC: 2 peak per sequence GC content
Dear all,
I have some genomic pair-end data from a nematode. I ran FASTQC to have an overview of the data.
I was surprised... -
How to get GC positions in hg19
I want to get all the coordinates (positions) of the GC in the entire genome hg19 as a bed file (or similar format). Is there a tool to do that? or I... -
Adjust GC content for motif enrichment
Hi All,
I have 2 set of sequences (belong to two types of samples in one species). I want to enriched motifs in the first set of sequences... -
GC Content Analysis on Promoters
Hi All,
I have a set of sequences for genes promoters. To study the regulation mechanisms beyond these genes, I am trying to find motifs... -
[FASTQC] Biases in GC whole sequence content
Hey all, I am analyzing several RNA-Seq datasets and have noticed somewhat of an odd pattern. In all of the samples I've QC'd so far, there is a bias... -
Trying to get binned GC content in hg19
Hi,
I have a large (~2 million) set of SNPs and I would like to know the GC content +/- 500 bp from the variants. I have some Python and... -
interpret GC bias metrics from Picard
Hi,
I am working with a RNA-seq dataset (human samples), and am generating many "metrics" from Picard to check quality. Picard... -
DESeq/DEXSeq and GC content
Is there an easy way to add a per-gene covariate like GC content when I fit the GLMs in DESeq? I'm only able to find per-sample covariates in the vignettes....
