updated 25 days ago by
Jeremy Leipzig
22k
•
written 10.5 years ago by
14134125465346445
★
3.6k
103
votes
42
replies
31k
views
34 follow
25
votes
11
replies
3.7k
views
6 follow
Forum:
Site Use Guidelines
updated 10 days ago by
Ram
43k
•
written 14.6 years ago by
Istvan Albert
100k
7
votes
7
replies
1.5k
views
updated 18 days ago by
Dunois
★
2.5k
•
written 18 days ago by
AdviceSeeker
•
0
1
vote
2
replies
360
views
5
votes
4
replies
349
views
4
votes
2
replies
319
views
0
votes
0
replies
174
views
Forum:
Improvement on automatic annotation of single-cell RNA-seq data from the literature using LLM
10 days ago by
yxwucq
•
0
Recent Votes
Recent Locations •
All
United States, just now
United States, just now
Italy, just now
United States, 1 minute ago
United States, 1 minute ago
United States, 3 minutes ago
Canada, 4 minutes ago
Recent Awards •
All
Popular Question to
Rob
▴
170
Popular Question to
curious
▴
750
Popular Question to
M.
▴
30
Student to
carolofharvest
▴
30
Commentator to
e.r.zakiev
▴
210
Recent Replies
Comment: Differential Expression Analysis using DESeq2 in R
by
Erina
•
0
![Here is the code I am using for the analysis][1]
[1]: /media/images/8a511904-6ae8-47f5-b647-ee15b02b
Answer: Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read
by
swbarnes2
14k
In paired end sequencing, every read has a mate, and the flags all together tell you not only what is up with the read you are looking at, …
Comment: how to combine multiple RNAseq count files into a single dataframe in R and unix
by
Mbofire
•
0
I need assistance don't know what to do next after signing up
Comment: Easy way to find out which allele is minor allele from bed file?
by
curious
▴
750
According to the link:
"When *generating* such filesets, PLINK 1.x defaults to swapping the alleles whenever A1's frequency is above (not …
Comment: TaxID mapping file
by
GenoMax
142k
nodesDB file should have been installed if you had used "Install" script for `blobtools` according to : https://blobtools.readme.io/docs/ta…
Comment: Parametric or non-parametric tests for qPCR significance testing between treatme
by
e.r.zakiev
▴
210
obviously if the values are really sampled from a (quasi) normally-distributed values, then n doesn't matter, he could use t-test even with…
Comment: Converting CRAM to FastQ
by
GenoMax
142k
You can use any reference that you like at this point. Since you are planning to use GATK, you can get their version from the resource bund…
Comment: Converting CRAM to FastQ
by
Maverick
▴
10
![enter image description here][1]I was able to get my fastq files. I can see that my reference files are cached in a hts-ref directory but…
Comment: Differential Expression Analysis using DESeq2 in R
by
swbarnes2
14k
Okay, that shows us the problem, but not what we need to solve it.
But, for instance, are you sure that period after the sample name shou…
Comment: Easy way to find out which allele is minor allele from bed file?
by
bk11
★
2.4k
In the case of MAF = 0.5, I think A1 is still the minor allele. You can check the discussion in this [link][1].
[1]: https://groups.goo…
Comment: Easy way to find out which allele is minor allele from bed file?
by
curious
▴
750
Yes, but I think the problem is what to do when MAF = 0.5
Answer: Easy way to find out which allele is minor allele from bed file?
by
bk11
★
2.4k
In Plink, A1 is usually a minor allele and A2 a major allele.
.frq (basic allele frequency report)
Produced by --freq.
…
Comment: Raw counts using stringtie
by
GenoMax
142k
> Error parsing strand from GFF line
Looking at this error and the listing of files in your directory it looks like you need to `gunzip` t…
Comment: High Malat-1 expression in single cell data
by
dsull
★
6.0k
I briefly looked at those genes on a genome browser -- there are a lot of repeat elements in those genes, meaning a lot of counts assigned …
Traffic: 2284 users visited in the last hour
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by the
version 2.3.6
version 2.3.6