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Comment: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
finding evidence(s) of a peptide translated from an "Upstream Open Reading Frame (uORF)"
A: How To Merge Two Fastq.Gz Files?
Answer: Annotating file using bcftools
Answer: Getting differential ChIP-seq peaks between conditions after calling consensus p
Answer: Getting differential ChIP-seq peaks between conditions after calling consensus p
Convert fastq.gz to fastq.bgz
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From the marker genes of each cluster, we can determine whether the cluster belongs to human or mouse. Human genes are all capitalized, whi…
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Thanks a lot. It is almost what I need but not all. From your script, I can get information that how much degree different samples contri…
Comment: finding evidence(s) of a peptide translated from an "Upstream Open Reading Frame
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sorry, this isn't a sequence search but search by id ...
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![enter image description here][1]Hi, this is the list/ excel I am uploading ( coverage.xlsx ) ![enter image description here][1] [1…
Comment: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
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There has been some spam bots in this thread which we cleaned up, you might still get notifications on it, just ignore.
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You're lucky that the senior developer @rob is often around, so you probably get your experts answer soon.
Answer: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
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I think the issue is that there is some contamination of groups. If you plot a PCA or MDS you see that there is a clear separation between …
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Comment: Getting differential ChIP-seq peaks between conditions after calling consensus p
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That having said, linked paper and its authors developed the csaw package over at Bioconductor that uses a window approach to avoid peak ca…
Comment: Getting differential ChIP-seq peaks between conditions after calling consensus p
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Ian
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Really interesting answer. I had missed that paper and will digest it asap. I usually use DiffBind, but recently have been looking into p…
Comment: Annotating file using bcftools
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kl
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It worked with this `bcftools index -t $DATADIR/cpro_imputed_hrcgrch37.R2_0.3.vcf.gz` bcftools annotate \ -a $RefGenomes/All_2018…
Comment: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
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This is true. However, there are a number of studies that have done bioinformatics analysis in whole blood to see if there is a possibility…
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Thank you for help! I solved the probelm with the package.
Comment: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
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I have checked the quality of the arrays using PCA and Boxplot (images attached) and some of the samples may deviate a little but perhaps n…
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the nt database was extracted, and this is latest version of nt database in ncbi and blastn with version 2.15. I used many query file.fast…
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