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Recent Replies
Comment: How to deal with the probe id mapping to multiple gene ids?
by
GenoMax
127k
Where are you seeing this? [Platform file for this array][1] on GEO has these names uniquely assigned.
[1]: https://www.ncbi.nlm.nih.go…
Comment: My keys are all ENSEMBL, but R says they are not valid keys for ENSEMBL
by
rpolicastro
11k
`Org.Mm.eg.db` is the mouse organism database, but your ENSEMBL IDs are for human genes. Mouse ensembl ids start with `ENSMUSG`.
You proba…
Comment: Snakemake doesn't recognize output files even though they are created
by
DdogBoss
•
0
Yes, it completed the dry run. What other information do you need?
Comment: LDSC correlation calculate confidence intervals
by
YL
▴
10
Based on my personal thought, I think the se from LDSC output probably needs to be transferred using Delta method based on Fisher transform…
Comment: LDSC correlation calculate confidence intervals
by
YL
▴
10
Hi,
Are you able to find an answer for this? I have the exact question!
YL
Answer: Gene duplicate
by
ATpoint
71k
Use use ensembID_geneName as gene identifier to avoid that. These duplicate names exist as genes so removing them is somewhat not really da…
Comment: Gene duplicate
by
Ram
38k
> some Ensembl IDs that are the same
Please show us some examples.
Comment: R package for functional enrichment and depletion analysis
by
rpolicastro
11k
What you're describing is a simulation of the hypergeometric test, so if you want an exact solution you could use the function `fora` from …
Comment: How to remove duplicate reads after ONT basecalling from fastq.gz files
by
Darrenjdd
•
0
Perfect! Thank you!
Comment: Why Chip-seq data cross correlation plot has fragment_lenth cross correlation p
by
Daniel
•
0
Hi,
I am wondering if you ever got an answer for this question.
Also, I am curious why it is true that "All the reads coming from one end…
Answer: how can i filter a sam file from a paf file
by
Trivas
▴
750
A quick search shows that `paf2sam` doesn't exist because a `.paf` file doesn't contain the CIGAR strings that `.sam` files have. A work ar…
Comment: What is the major problem with this pipeline of SNPs analysis?
by
Ram
38k
Please use the formatting bar (especially the `code` option) to present your post better. You can use backticks for inline code (\`text\` b…
Comment: What is the major problem with this pipeline of SNPs analysis?
by
Pierre Lindenbaum
153k
you can stick to gatk. But, again, using a GVCF without GenotypeGVCF is meaningless
Comment: Getting Intron Positions from Amino Acid Sequences
by
fafad046
•
0
thank you so so much, it worked! you are an absolute life savior :D
Answer: Getting Intron Positions from Amino Acid Sequences
by
GenoMax
127k
Using [**EntrezDirect**][1] (truncated because of space):
$ esearch -db protein -query NP_001243728.1 | elink -target gene | efetch …
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