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Analysis of intronic reads included scRNA-seq data
removeBatchEffect explained using base R linear models
Answer: ChIP-seq datasets: input samples omitted?
Answer: ChIP-seq datasets: input samples omitted?
Answer: Is therer any suggestions on mapping rate of WGBS data?
A: Download full list of SNPs and their coordinates in hg38
Answer: HCL database download
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Comment: Applying the metacell2 algorithm using python
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JACKY
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The vignette I followed, although lacking, seems better since it focuses on doing iterative process. I'll keep looking perhaps I'll find so…
Comment: A question about reference genome for creating the consensus sequence
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me
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Hi, yes, my cram files cover the whole genome, which is actually individual genome information. I wonder how to adjust the base genome. Tha…
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DGTool
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At least according to the documentation, it seems for WGS you can use the `batch --method wgs` option. There is more information here: [htt…
Answer: A question about reference genome for creating the consensus sequence
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ATpoint
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It is the consensus for all reads that overlap a given base, it's not a genome consensus unless your reads cover the entire genome.
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Anitha
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Hello everyone, I need to call the CNV from my hunam WGS data. I searched for many tutorial, but I did'nt get any proper procedure. I am tr…
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t.montserrat.ayuso
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I don't think dropout is playing an important role with Malat1 since it is usually highly expressed. On the other hand, if dropout is still…
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analyst
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Resolved by increasing heapsize of -Xmx50G
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Talk to your HPC sysadmin - array jobs might be getting different kinds of nodes compared to standalone jobs.
Comment: Is therer any suggestions on mapping rate of WGBS data?
by
Zeng Jingyu
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Thank you for your answer!
Answer: HCL database download
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sooni
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I solved the problem by conneting another internet exploer. I think it was probably a problem with Chrome itself.
Answer: barcode of TCR-sequencing
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mizraelson
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Hi, What protocol did you use for TCR-seq library preparation? Generally speaking, there is no need to remove barcodes, as MiXCR can work …
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qwertyuiop26
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I've implemented fm index with backward search and need an inexact search to implement on FM index, I couldn't understand how fm index coul…
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The md5 hash they refer to on line 22 (f46a7ca244afef522b22a11bd33d27b1) appears to map to a *S. aureus* strain, not *S. hominis* (you can …
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Qroid
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You could try including disease scale for each sample as a design factor. See the vignette here https://bioconductor.org/packages/devel/bio…
Comment: Help with generating annotation database for dog genome to use in ANNOVAR for v
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Hello, Thanks for the reply. I could only see the refMrna.fa file in the link you provided. Where can I get the refGene.txt file. Thanks fo…
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