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Recent Replies
Comment: Telescope issue
by
GenoMax
141k
Looks like there is a tab missing between the sequence and the quality string.
Comment: Post-imputation plot
by
LChart
3.9k
I would pull out the variants with panel_freq ~ 1 - upload_freq and min(panel_freq, upload_freq) < 0.4. I would check if these are G/C or A…
Comment: Telescope issue
by
eleven11
•
0
Hello the output is
A01940:33:GW2208142379th:3:1317:24126:3505 355 chr14 16651125 0 150M = 17034150 122900 GCTAACAGAGTTGAACCTTTCTATTG…
Comment: What does 'bundle_uuid' refer to in this metadata sheet?
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GenoMax
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Looking at the [code here][1] `bundle_uuid` seems to be related to the submissions to HCA. Samples that ran on multiple lanes seem to have …
Comment: What does it mean single base resolution in sequencing?
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LauferVA
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this is very true and increasingly true as time goes forward. thanks for supplementing this post with your own :-)
Comment: What does 'bundle_uuid' refer to in this metadata sheet?
by
jeffrey.maurer.informatics
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Thank you, but I've already checked out that site to see if I was missing anything and I don't see any answers to my questions there.
Answer: p-value in CIBERSORT
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Aspire
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You have not explicitly specified the number of permutations (which are used to calculate the p-value). The default value of the permutatio…
Comment: Telescope issue
by
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> CIGAR and query sequence are of different length [W::sam_read1] Parse error at line 9954941
Problem appears to be at that line. Can you …
Comment: What does 'bundle_uuid' refer to in this metadata sheet?
by
GenoMax
141k
SRA Run Selector shows a better view of the metadata: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA761679&o=acc_s%3Aa
Comment: Adjust pvalue in R with different approach give me all different outcome
by
Aspire
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- `p.adjust()` is supposed to receive a **numeric vector of p-values**, not a matrix.
- It makes no sense to "adjust" just one p-value, …
Comment: Downsampling fastq file
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I understood where the problem lies. I discussed with my wet lab colleagues (this is part of a bioinformatician's job...) and by showing th…
Comment: Programmatically retrieving positions of protein active site residues
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me
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This question fits in nicely with the [SIB Swiss Institute of Bioinformatics course on Enzyme information in UniProt][1]
[1]: https://w…
Answer: Programmatically retrieving positions of protein active site residues
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me
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This can be done via SPARQL at the UniProt.org sparql endpoint
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX fald…
Comment: KEGG Pathways
by
Sudip
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0
No it does not. Do you know of a way that can help me achieve what I want?
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