3 days ago by
Bosberg
▴
50
0
votes
2
replies
195
views
0
votes
0
replies
87
views
0
votes
2
replies
149
views
0
votes
0
replies
96
views
0
votes
2
replies
196
views
0
votes
0
replies
87
views
0
votes
0
replies
93
views
updated 3 days ago by
GenoMax
142k
•
written 3 days ago by
aliraza3119
•
0
0
votes
1
reply
128
views
0
votes
1
reply
204
views
updated 3 days ago by
christopher medway
▴
450
•
written 4 days ago by
Tigran
•
0
2
votes
2
replies
193
views
0
votes
9
replies
2.5k
views
6 follow
0
votes
1
reply
165
views
0
votes
0
replies
120
views
updated 3 days ago by
dariober
14k
•
written 4 days ago by
rene.j.erhardt
▴
20
1
vote
3
replies
295
views
0
votes
0
replies
137
views
0
votes
0
replies
139
views
5 days ago by
Chris
▴
260
0
votes
0
replies
565
views
0
votes
0
replies
203
views
1
vote
0
replies
156
views
0
votes
0
replies
175
views
0
votes
0
replies
171
views
0
votes
0
replies
153
views
0
votes
3
replies
297
views
1
vote
3
replies
371
views
0
votes
5
replies
361
views
updated 5 days ago by
Istvan Albert
100k
•
written 8 days ago by
sehriban.buyukkilic
▴
10
1
vote
8
replies
439
views
2 days ago by
marco.barr
▴
90
0
votes
10
replies
485
views
1
vote
2
replies
234
views
0
votes
3
replies
325
views
2
votes
5
replies
926
views
4
votes
9
replies
2.1k
views
3 days ago by
anna
▴
20
1
vote
14
replies
2.3k
views
updated 3 hours ago by
GenoMax
142k
•
written 4.5 years ago by
Swimming bird
▴
20
1
vote
6
replies
2.8k
views
updated 3 days ago by
dimpleadiwal050896
•
0
•
written 4.9 years ago by
ggman
▴
90
Recent Votes
Recent Locations •
All
Mexico, 1 minute ago
Canada, 1 minute ago
Canada, 1 minute ago
United Kingdom, 4 minutes ago
Canada, 4 minutes ago
Bangalore, 6 minutes ago
Morocco, 6 minutes ago
Recent Awards •
All
Popular Question to
Shicheng Guo
★
9.4k
Popular Question to
Sasha
▴
840
Popular Question to
Buffo
★
2.4k
Popular Question to
yvonnehhe
•
0
Popular Question to
curious
▴
750
Scholar to
jared.andrews07
★
16k
Popular Question to
hafiz.talhamalik
▴
350
Recent Replies
Comment: How to access TCGA samples that were treated with a specific drug?
by
GenoMax
142k
It is possible that these drugs may not have been directly used in TCGA. Authors could have looked for mutations known to be acted on by th…
Comment: Does comparing two different groups to a common third group introduce bias in th
by
Qroid
▴
40
Are you thinking about a specific scenario? If so, can you provide more info? I think the basic answer is that, yes, your choice of group C…
Answer: Bedtools merge minimum overlap?
by
harold.smith.tarheel
★
4.9k
Bedtools [intersect][1] allows you to specify the fraction of overlap between two BED (or BAM) files using the F/f/r flags. You could split…
Comment: How to access TCGA samples that were treated with a specific drug?
by
Qroid
▴
40
Sorry, I should have been more specific. By "that list" I mean what's populated in the Therapeutic Agents tab when no filters are applied. …
Comment: Bedtools merge minimum overlap?
by
bk11
★
2.4k
Not sure if you wanting to do like this-
cat your_input.bed
chr1 100 200 region1 +
chr1 180 300 regi…
Comment: Extract gRNA sequence using cutadapt
by
GenoMax
142k
If you know what the boundaries of your construct look like then trim the left-end of the read using the tag on that end (`ktrim=l`). Then …
Comment: Extract gRNA sequence using cutadapt
by
gernophil
▴
80
> Not every read in your data is going to match a guide.
That is also true for sure. Let me clarify what I mean. For every read you should…
Answer: VG : No reference-sense paths available in the graph; falling back to generic pa
by
anovak
▴
120
If your GFA has paths in it that are P lines with names that don't include a sample name, contig name, and separators, then those are what …
Comment: Extract gRNA sequence using cutadapt
by
GenoMax
142k
> if you look at a fastq file you should be able to tell for every read definitely, if it has a perfect match for a guide in it and what gu…
Answer: DiffBind: no peaks in DBA
by
jared.andrews07
★
16k
Because `dba.analyze` is not meant to be run directly on a peaks file. Have you read the documentation?
In addition, a ChIP-seq experiment…
Comment: Extract gRNA sequence using cutadapt
by
gernophil
▴
80
> I don't think every guide is supposed to show up in these experiments as far as I have seen. You will get some guides with 0 counts as yo…
Comment: Converting CRAM to FastQ
by
GenoMax
142k
Use `samtools view ` for this conversion. See discussion in https://www.biostars.org/p/9592860/
Specifically @jkbonfield's comment here --…
Comment: How to access TCGA samples that were treated with a specific drug?
by
GenoMax
142k
No that was only from Breast cancer. You could try selecting all data and see if you are able to see all treatments in the set.
No idea a…
Comment: Extract gRNA sequence using cutadapt
by
GenoMax
142k
I don't think every guide is supposed to show up in these experiments as far as I have seen. You will get some guides with 0 counts as you …
Traffic: 1982 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