0
votes
0
replies
29
views
6
votes
5
replies
10k
views
0
votes
1
reply
102
views
updated 14 hours ago by
GenoMax
152k
•
written 14 hours ago by
toobavaraste
•
0
1
vote
0
replies
69
views
15 hours ago by
Noah
▴
20
843
votes
170
replies
182k
views
112 follow
updated 11 weeks ago by
Biostar
3.6k
•
written 8.6 years ago by
Istvan Albert
102k
2
votes
5
replies
177
views
0
votes
8
replies
291
views
updated 17 hours ago by
GenoMax
152k
•
written 20 hours ago by
marek.gierlinski
•
0
0
votes
1
reply
113
views
1
vote
2
replies
766
views
updated 16 hours ago by
GenoMax
152k
•
written 2.7 years ago by
nourmahfel
▴
10
6
votes
11
replies
3.3k
views
updated 23 hours ago by
rajdeepboral00
▴
70
•
written 21 months ago by
Chris
▴
360
2
votes
2
replies
149
views
0
votes
1
reply
104
views
updated 14 hours ago by
GenoMax
152k
•
written 1 day ago by
2443422660
•
0
1
vote
2
replies
148
views
21 hours ago by
MAB
•
0
5
votes
7
replies
396
views
0
votes
0
replies
91
views
1
vote
2
replies
162
views
2
votes
6
replies
326
views
1
vote
1
reply
427
views
updated 1 day ago by
Gordon Smyth
★
8.2k
•
written 13 months ago by
Daniel
▴
10
5
votes
3
replies
293
views
0
votes
5
replies
292
views
2
votes
3
replies
280
views
3
votes
4
replies
260
views
updated 14 hours ago by
i.sudbery
21k
•
written 1 day ago by
rajdeepboral00
▴
70
3
votes
2
replies
230
views
1 day ago by
jkim
▴
210
0
votes
1
reply
346
views
updated 1 day ago by
andres.firrincieli
3.9k
•
written 6 days ago by
shevch2009
▴
20
2
votes
4
replies
319
views
0
votes
2
replies
220
views
2
votes
1
reply
173
views
2
votes
1
reply
5.7k
views
updated 2 days ago by
zahraniasari.2023
•
0
•
written 8.6 years ago by
abdullahrenk
▴
30
0
votes
2
replies
1.0k
views
0
votes
0
replies
124
views
0
votes
1
reply
173
views
2
votes
1
reply
188
views
updated 2 days ago by
Matthias Zepper
5.1k
•
written 2 days ago by
AIMAR
▴
50
0
votes
0
replies
176
views
3 days ago by
Physalia-courses
★
2.6k
2
votes
3
replies
479
views
1
vote
4
replies
332
views
updated 3 days ago by
jaro.slamecka
▴
270
•
written 3 days ago by
Manko47
▴
10
0
votes
1
reply
247
views
updated 3 days ago by
GenoMax
152k
•
written 4 days ago by
joe_genome
▴
60
1
vote
3
replies
415
views
updated 3 days ago by
yura.grabovska
▴
800
•
written 5 days ago by
Alba
•
0
0
votes
1
reply
248
views
updated 4 days ago by
Mensur Dlakic
★
29k
•
written 4 days ago by
omereilam1
•
0
0
votes
0
replies
191
views
1
vote
1
reply
313
views
1
vote
1
reply
347
views
updated 4 days ago by
yura.grabovska
▴
800
•
written 5 days ago by
Alba
•
0
1
vote
2
replies
603
views
0
votes
2
replies
609
views
2
votes
6
replies
594
views
4 days ago by
ZuelTech
•
0
0
votes
0
replies
251
views
0
votes
2
replies
365
views
9
votes
8
replies
1.1k
views
1
vote
3
replies
403
views
6 days ago by
boczniak767
▴
880
2
votes
4
replies
2.7k
views
updated 6 days ago by
cmdcolin
★
4.3k
•
written 4.1 years ago by
boczniak767
▴
880
1
vote
4
replies
1.2k
views
Recent Votes
Recent Locations •
All
France, 1 minute ago
Norway, 4 minutes ago
Bologna, 7 minutes ago
United Kingdom, 12 minutes ago
ETH Zurich, 14 minutes ago
Karolinska Institutet, Sweden, 17 minutes ago
Australia, 28 minutes ago
Recent Awards •
All
Popular Question to
san96
▴
190
Popular Question to
PKW
▴
110
Popular Question to
Pei
▴
240
Popular Question to
ecSeq Bioinformatics
▴
20
Scholar to
Jouni Sirén
▴
710
Popular Question to
Alireza.Tafazoli
•
0
Popular Question to
QX
▴
80
Recent Replies
Comment: TCGA MSI status
by
GenoMax
152k
You can get some data from GDC portal: https://portal.gdc.cancer.gov/analysis_page?app= and https://portal.gdc.cancer.gov/analysis_page?app…
Comment: TCGA MSI status
by
Muhammad Rohan Ali
•
0
Can I get TCGA somatic mutation vcf files or maf files
for MSI - H, MSI-L - MSS samples?
I mean open access without any special access…
Comment: feature_ref files in upstream analyses related to Perturb-seq
by
GenoMax
152k
What kind of technology is this data from? If it is Parse tech data then you may need to use their pipeline that you can get from here: htt…
Comment: Summing the counts of duplicated genes in RNA seq data?
by
GenoMax
152k
> duplicated genes
What is the origin of those genes. Are they entries with same name in GTF but different chromosomal locations (e.g. cop…
Comment: Plotting of genes using tpm matrix
by
i.sudbery
21k
Yes, the y-axis is reasonable. ALthough the test for differences should come from DESeq, rather than from a wilcox in this case. With four …
Comment: [VG sim, surject, giraffe] How to remove a sample from GFA/GBZ graph
by
saruman
•
0
Done. Thank you.
Comment: Download Isoform expression data from tcga
by
GenoMax
152k
Far as I know TCGA did not do transcript level expression as a standard analysis (see the list here --> https://docs.gdc.cancer.gov/Data/Bi…
Comment: [VG sim, surject, giraffe] How to remove a sample from GFA/GBZ graph
by
GenoMax
152k
https://www.biostars.org/u/45375/ : Please accept this answer (green check mark) to provide closure for this thread.
Comment: [VG sim, surject, giraffe] How to remove a sample from GFA/GBZ graph
by
saruman
•
0
And thank you for the great work!
Comment: [VG sim, surject, giraffe] How to remove a sample from GFA/GBZ graph
by
saruman
•
0
Thank you so much. I did not fully grasp the `vg gbwt` command.
Answer: [VG sim, surject, giraffe] How to remove a sample from GFA/GBZ graph
by
Jouni Sirén
▴
710
You can remove a sample from a GBZ graph in two steps. First you extract the GBWT index from the GBZ file:
```
vg gbwt -o graph.gbwt -Z…
Comment: Strandedness issues in STAR quantification
by
GenoMax
152k
Since the program author has recommended it, can you try indexing without the GTF and then counting again. You don't have polycistronic tra…
Comment: Theoretical Question: Is Sub-Angstrom Geometric Identity (RMSD < 0.1 Å) in Conve
by
GenoMax
152k
Monellin and Thaumatin are of significantly different size and show no sequence homology. They have completely different tertiary structure…
Comment: Strandedness issues in STAR quantification
by
marek.gierlinski
•
0
Oh, I wouldn't know what to look for in IGV. The issue is with quantification, and looking at a BAM file in IGV does not tell me how a give…
Comment: Discrepancy Between Fragment Size Distribution and MACS3-Predicted Fragment Leng
by
christoph.neu
▴
10
The Bioanalyzer was used to check if a library preparation would be worth it, that's why we did it before hand. And I was expecting a bit o…
Traffic: 2526 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