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Recent Replies
Answer: Multi-factor designs in DiffBind
by
g.persic1991
•
0
Hi ATpoint,
thanks for your quick answer.
So, If I understand correctly, in this condition and using DiffBind, I can't take into acco…
Answer: Multi-factor designs in DiffBind
by
ATpoint
78k
Read the error: `There must be at least two sample groups with at least three replicates.` Yet, you only have n=2 per group.
See for ex…
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
by
Hải Đăng
•
0
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)
by
David Langenberger
10k
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
by
ATpoint
78k
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
•
0
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
by
sam.himes92
•
0
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.
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