3
votes
3
replies
461
views
4
votes
11
replies
453
views
7
votes
6
replies
441
views
3 days ago by
analyst
▴
30
2
votes
5
replies
422
views
0
votes
6
replies
421
views
3
votes
4
replies
418
views
0
votes
2
replies
416
views
5 days ago by
_quantum_girl_
▴
10
1
vote
1
reply
409
views
5 days ago by
Dinmukhamed
•
0
1
vote
1
reply
408
views
updated 3 days ago by
Gordon Smyth
★
7.0k
•
written 6 days ago by
Chris
▴
260
0
votes
2
replies
407
views
5 days ago by
Ashok
•
0
2
votes
3
replies
405
views
6 days ago by
valentinatsar
•
0
1
vote
4
replies
401
views
0
votes
1
reply
398
views
2
votes
2
replies
390
views
updated 1 day ago by
Pierre Lindenbaum
161k
•
written 8 months ago by
AshleeThomson
▴
80
1
vote
1
reply
387
views
3
votes
9
replies
375
views
updated 5 hours ago by
Istvan Albert
100k
•
written 1 day ago by
Κοσμάς
•
0
2
votes
2
replies
369
views
0
votes
2
replies
368
views
5 days ago by
Ashok
•
0
0
votes
2
replies
365
views
6 days ago by
22211020193
•
0
1
vote
1
reply
365
views
0
votes
3
replies
352
views
0
votes
10
replies
339
views
0
votes
2
replies
339
views
4
votes
2
replies
310
views
0
votes
2
replies
306
views
6 days ago by
Sudip
•
0
2
votes
3
replies
303
views
updated 2 days ago by
dsull
★
5.8k
•
written 15 days ago by
javanokendo
▴
60
1
vote
1
reply
293
views
1
vote
5
replies
286
views
1 day ago by
anasjamshed
▴
120
2
votes
1
reply
281
views
updated 4 days ago by
GenoMax
141k
•
written 4 days ago by
rebecca.calvo
•
0
0
votes
1
reply
278
views
0
votes
6
replies
278
views
0
votes
0
replies
272
views
0
votes
8
replies
270
views
0
votes
1
reply
264
views
0
votes
1
reply
262
views
0
votes
1
reply
262
views
2
votes
4
replies
261
views
0
votes
1
reply
258
views
3
votes
2
replies
256
views
2
votes
1
reply
255
views
updated 6 days ago by
Ram
43k
•
written 6 days ago by
anasjamshed
▴
120
0
votes
5
replies
252
views
1
vote
1
reply
250
views
updated 4 days ago by
Gordon Smyth
★
7.0k
•
written 4 days ago by
Bioinformatician
•
0
0
votes
2
replies
249
views
updated 3 days ago by
Ram
43k
•
written 4 days ago by
Matteo Ungaro
▴
100
1
vote
5
replies
236
views
updated 2 days ago by
Ram
43k
•
written 2 days ago by
marco.barr
▴
80
2
votes
4
replies
234
views
3
votes
5
replies
234
views
updated 2 days ago by
GenoMax
141k
•
written 2 days ago by
ahmad.sajad4541
•
0
0
votes
4
replies
232
views
4
votes
5
replies
226
views
1
vote
2
replies
225
views
updated 2 days ago by
Gordon Smyth
★
7.0k
•
written 16 days ago by
Netanel
•
0
1
vote
3
replies
224
views
17 hours ago by
Art1ess
•
0
Recent Locations •
All
United States, 6 minutes ago
Finland, 6 minutes ago
Canada, 8 minutes ago
United Kingdom, 9 minutes ago
United States, 10 minutes ago
United States, 11 minutes ago
Poland, 12 minutes ago
Recent Awards •
All
Popular Question to
Russ
▴
500
Popular Question to
camillab.
▴
160
Popular Question to
pramach1
▴
40
Popular Question to
Adyasha
•
0
Popular Question to
sehriban.buyukkilic
▴
10
Popular Question to
O.rka
▴
710
Popular Question to
Akash D
▴
40
Recent Replies
Comment: Troubleshooting RNA-seq data with DNA contamination
by
GenoMax
141k
Please post information about your tool as a `tools` category post. Don't wait/ask other users to ask you.
Comment: Adding CB tag to bam file
by
Maria
•
0
Sorry for the delay in my answer, I got sidetracked.
I am using
```samtools addreplacerg -r "@RG\tID:$cell" -o $cell.bam -h $LINE```
bu…
Answer: Troubleshooting RNA-seq data with DNA contamination
by
haibol2017
▴
10
We just developed a R package to tackle this problem.
Do you have stranded or unstranded RNA-seq data contaminated with gDNA?
If you wou…
Comment: How to trim transcripts using information from NCBI contamination screen report
by
GenoMax
141k
`bbduk.sh` can use the transcripts as input. There is a `adapters.fa` included in the `resources` directory of the distribution. You can do…
Comment: PCA plot (Suggestions Needed)
by
swbarnes2
14k
Cross posted here (including the code used to make up the counts):
https://support.bioconductor.org/p/9157911/#9157959
Comment: To get p-values for the TPM
by
swbarnes2
14k
RSEM returns a kind of p-value if you run it with the "prior-enhanced" option. Did you do that? Are you completely sure that's the value y…
Comment: How to trim transcripts using information from NCBI contamination screen report
by
Lada
▴
30
i checked both of these programs (`bbduk` and `fastp`) and it seems they use reads as inputs (fastq formats)... how can I trim my transcrip…
Comment: AGeNT LocatIt
by
barslmn
★
2.1k
He is already giving 32G, 320G for marking duplicates for exome is excessive. Is there a specific reason for using the tool?
Comment: How to convert plink files to Hapmap Format
by
bk11
★
2.3k
This looks good. Please try with using `--allow-no-sex flag`
plink --bfile your_data_phenoUP --assoc --allow-no-sex --out your_data_ph…
Comment: How to convert plink files to Hapmap Format
by
Sofia
•
0
SC899359_PC75420_A05 SC899359_PC75420_A05 0 0 0 2
SC899360_PC75415_D01 SC899360_PC75415_D01 0 0 0 2
SC899361_PC75425_H05 SC899361_PC75425_H…
Comment: How to convert plink files to Hapmap Format
by
bk11
★
2.3k
Please show me a few lines of phenotype updated .fam file. You can do `head
your_data_phenoUP.fam` and paste result here. Please do not us…
Comment: GEMMA GWAS how to specify factor or numerical for covariates
by
Sofia
•
0
Hi, I don't have a solution to your question but I followed this tutorial and was helpful to me in my analysis https://youtu.be/NusV6duyvXs…
Comment: Is it possible to get a list of representative genomes from a past RefSeq releas
by
GenoMax
141k
Catalog file lists the genomes included. There seem to be 71365 unique items in field 2.
2 Bacteria WP_000018326.1 4459…
Comment: How to convert plink files to Hapmap Format
by
Sofia
•
0
yes sure !
![enter image description here][1]
[1]: /media/images/f0f94f6c-4387-4188-a1aa-19152a89
Answer: AGeNT LocatIt
by
Greg
•
0
Give it more memory.
~10x more memory, or whatever you can give it,
I had samples that weren't even close to being done after 3.5 da…
Traffic: 2553 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