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Batch Query MyVariant.info with chr:pos list

myvariant written 16 months ago by williamgdjones • 0 • updated 16 months ago by Newgene • 350

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Recent Replies

A: ATAC-seq annotation to gene names by RHI • 0
Thank you so much. Is there a way I can do the same using R? Is there any package/function would ...
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When using web API it looks like it automatically searches against ALL protein databases.
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works for me. $ wget -q -O - "https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=...
A: Can't download some proteins using Entrez by GenoMax ♦ 94k
Looks like these are from IPG database. Results truncated for space. $ esearch -db ipg -quer...
C: Samtools Faidx Error Message by John Marshall ♦ 2.2k
This is (for now) fixed; plain `conda create -n myenv samtools` will give you an up-to-date versi...
C: Question about featureCounts strand options by lorenzo • 20
Thanks for the information! Yes, I used hisat2 with 2 read files as input.
C: How to get the target sequence of matching consensus motif using Seqkit? by 2021yearsold • 0
Thanks @shenwei356. Solution to my problem was in the -s option, which searched both strands. Now...
C: How to handle duplicate row names in R by koushikayaluri • 40
Thank you very much it works now.
C: Question about featureCounts strand options by GenoMax ♦ 94k
> I have bam files obtain from pair-end reads. Then you have to use `-p` as pointed out by @h...
C: What does p-value mean ? What and how can i interpret the results by Jorge Amigo ♦ 12k
Fair enough, Ram. I was just surprised how anyone could think that the best way to get his first ...
C: Question about featureCounts strand options by lorenzo • 20
Using "-s 1" or "-s 2" the program warns me that "Paired-end reads were found and excluded", as y...
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Also, note that for finding DE genes, the typical way to handle batches is **not** to alter the c...

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