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Answer: Calculate GC content for entire chromosome
STAR ALIGNMENT
STAR ALIGNMENT
Best method for batch correction of three datasets
CITEseq tutorial
C: PCA vs ICA prior to t-SNE or UMAP
C: PCA vs ICA prior to t-SNE or UMAP
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Comment: absolute running error: Error in if (!is.na(res)) { : the condition has length >
by
qiuting
• 0
this is the error.log: Detected error in sample P01_1 Error message: the condition has length > 1 Where: if !is.na(res) { mode.tab[(i…
Comment: STAR ALIGNMENT
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Hải Đăng
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Sis, where are you currently working? How can I get in touch with you?
Answer: RNA-Seq Data Analysis Workshop (March 11 - 14, 2024 in Berlin, Germany)
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David Langenberger
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We already have an incredible number of registrations for this time. If you still want to be there, then you should register soon!
Comment: scRNA data analysis , how to compare pattern in multiple samples
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ATpoint
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Can you please ask a precise question rather than posting a wall of code? What is the main problem you have, what did you try? Did you foll…
Comment: vcftools
by
sevda
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Hello, Thank you for your attention. It ran successfully and I got no errors or warnings but no new files were created.
Comment: Resolving over clustered NGS with Q-scores
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sam.himes92
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The system that we used was [Aviti][1]. Our sequencing core was the one who quantified the loading/library concentration. Sorry I don't hav…
Comment: Where can I get a list of SNPs mapping overlapping genes in humans?
by
Alex Reynolds
35k
I modified the answer with an approach for that use case.
Comment: Where can I get a list of SNPs mapping overlapping genes in humans?
by
Ram
41k
OP is looking for overlapping genes - genes with presumably different gene IDs that share some loci. I think the `genes.bed` creation logic…
Comment: Where can I get a list of SNPs mapping overlapping genes in humans?
by
Alex Reynolds
35k
Note: The file `snps.bed` will be very large. You'll need sufficient disk space for this step.
Answer: Where can I get a list of SNPs mapping overlapping genes in humans?
by
Alex Reynolds
35k
Given files `genes.bed` and `snps.bed`, you could do something like: ``` $ bedmap --echo --echo-map-id --delim '\t' genes.bed snps.bed > a…
Answer: How to add exon annotations to genome annotation
by
alex.zaccaron
▴ 380
You can use [AGAT][1] to process your annotation file to add the missing exons. I believe `agat_convert_sp_gxf2gxf.pl -g no_exons.gff -o wi…
Comment: Annotation Visualization IGV
by
Pierre Lindenbaum
158k
and you got answer that should be validate (green tick), or people asked you questions but got no answers.
Comment: Annotation Visualization IGV
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awhale01
• 0
Correct I have asked those questions before.
Comment: Annotation Visualization IGV
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Pierre Lindenbaum
158k
you asked questions before: review, comment and/or validate them please: https://www.biostars.org/p/9530777/ ; https://www.biostars.org/p/9…
Comment: Ambient RNA removal method that generates whole (integer) counts
by
EK
• 0
Thanks, Jared. Sounds like rounding counts is the simplest approach for now. :)
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