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Comment: Create a new bed file with all pairwise combinations between two other bed files
by
J
•
0
Thank you for replying Pierre.
I first added a third column to the SNP bed file, so that I would get a range of 1 for each SNP
awk 'B…
Comment: Create a new bed file with all pairwise combinations between two other bed files
by
Pierre Lindenbaum
161k
> using bcftools
Show us what you tried
Answer: gvcf joint calling
by
Jeremy Leipzig
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> Hi, guys, there is a question about the genomic gVCF file. I wonder
> that since gVCF contains the non-var block records, why after merge…
Comment: Missing protein (VEGF-A) in String db
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shalespringer
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Thank you for replying here; this helped me figure out why MAPK10 was missing from my results. It was also marked as a pseudogene in the En…
Comment: How to convert plink files to Hapmap Format
by
Sofia
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These are the first lines of the output: (Please is it normal to have NA in the P value column ?)
CHR …
Comment: How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq librarie
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atowns21
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So I used the barcodes that I created (combos of positions 1-10 and 11-20) and I obtained similar alignment stats as the paper I pulled the…
Comment: How to convert plink files to Hapmap Format
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Sofia
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Thank you so much, it actually worked!
Answer: Rare Disease Variant Pathway Analysis
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LauferVA
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Hi @efc1e545 ,
First a caveat. the information we most need in order to help guide you to a successful conclusion is not provided in thi…
Answer: Sequence read length shorter than flow cell specification
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swbarnes2
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The company probably had you share your run with someone who needed the extra bases.
So you get the extra bases free. Just use them unle…
Comment: how to combine multiple RNAseq count files into a single dataframe in R and unix
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Ram
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Thank you, the `csvtk spread` is super useful. I usually import into R using `lapply` then `Reduce` using `merge` but this might be easier.
Comment: Annovar using R package
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DKA
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Thank you for your guidance. The thing is that I am unfamiliar with using such environments, unfortunately.
Comment: Treatment VS Control in Single Cell RNAseq analysis
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ATpoint
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Open a new question, with details.
Comment: Normalize scRNAseq data to housekeeping genes to compare several datasets
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ATpoint
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I recommend https://bioconductor.org/books/3.18/OSCA.basic/normalization.html as well as the "advanced" section in this book.
Comment: Treatment VS Control in Single Cell RNAseq analysis
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kilcdincer
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Hello, I have more or less same experimental setting and was wondering how you proceeded with your analysis?
Can I reach its GitHub reposit…
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