0
votes
1
reply
49
views
0
votes
2
replies
70
views
updated 3 hours ago by
harold.smith.tarheel
★
4.9k
•
written 5 hours ago by
SJP
•
0
0
votes
0
replies
23
views
0
votes
1
reply
68
views
1
vote
3
replies
116
views
updated 4 hours ago by
jared.andrews07
★
16k
•
written 8 hours ago by
yvonneh
▴
10
1
vote
2
replies
77
views
3
votes
8
replies
6.5k
views
7 follow
updated 6 hours ago by
Sd
•
0
•
written 5.1 years ago by
Nicolas Rosewick
11k
0
votes
2
replies
83
views
0
votes
0
replies
48
views
0
votes
1
reply
95
views
2
votes
6
replies
172
views
0
votes
1
reply
441
views
0
votes
1
reply
72
views
updated 6 hours ago by
Mensur Dlakic
★
27k
•
written 9 hours ago by
Arun Sai Kumar
•
0
1
vote
1
reply
98
views
1
vote
1
reply
104
views
updated 9 hours ago by
jared.andrews07
★
16k
•
written 14 hours ago by
Oburah
•
0
0
votes
4
replies
137
views
updated 10 hours ago by
jared.andrews07
★
16k
•
written 10 hours ago by
JH
•
0
0
votes
2
replies
110
views
7 hours ago by
Chen
•
0
5
votes
5
replies
188
views
updated 10 hours ago by
atharvakarkare14
▴
30
•
written 14 hours ago by
Begonia_pavonina
▴
150
0
votes
6
replies
339
views
updated 10 hours ago by
GenoMax
142k
•
written 22 days ago by
eesiribloom
▴
80
1
vote
1
reply
102
views
0
votes
0
replies
55
views
0
votes
0
replies
58
views
updated 9 hours ago by
Ram
43k
•
written 15 hours ago by
carlopecoraro2
★
2.5k
0
votes
1
reply
178
views
0
votes
0
replies
79
views
1
vote
1
reply
101
views
updated 9 hours ago by
Ram
43k
•
written 16 hours ago by
marco.barr
▴
90
0
votes
0
replies
52
views
0
votes
1
reply
97
views
0
votes
0
replies
61
views
9
votes
10
replies
409
views
6 follow
updated 9 hours ago by
Zamin Iqbal
▴
20
•
written 1 day ago by
nicole.kavanagh
•
0
0
votes
1
reply
237
views
updated 20 hours ago by
Scooter
▴
280
•
written 7 days ago by
avocado123
•
0
0
votes
0
replies
62
views
21 hours ago by
James
▴
10
0
votes
1
reply
553
views
1
vote
2
replies
149
views
updated 17 hours ago by
ATpoint
82k
•
written 23 hours ago by
poordumbsillyidiot
•
0
0
votes
1
reply
171
views
0
votes
0
replies
68
views
0
votes
0
replies
95
views
0
votes
7
replies
435
views
0
votes
1
reply
185
views
1
vote
3
replies
263
views
updated 1 day ago by
ATpoint
82k
•
written 1 day ago by
jagdish7921
•
0
0
votes
1
reply
754
views
0
votes
1
reply
117
views
updated 1 day ago by
Ram
43k
•
written 1 day ago by
ernestine.kubi
•
0
0
votes
0
replies
85
views
1
vote
2
replies
221
views
19 hours ago by
rianna.collins
•
0
0
votes
1
reply
156
views
0
votes
0
replies
122
views
0
votes
1
reply
448
views
updated 1 day ago by
Ram
43k
•
written 2 days ago by
Dr Huma Naz
•
0
2
votes
2
replies
245
views
1 day ago by
michelafrancesconi9
▴
20
0
votes
5
replies
327
views
5
votes
6
replies
487
views
1
vote
1
reply
215
views
updated 2 days ago by
Ram
43k
•
written 2 days ago by
Jonathan Yoou
▴
60
Recent Votes
Recent Locations •
All
USA, just now
Australia, 1 minute ago
United States, 3 minutes ago
Australia, 4 minutes ago
Australia, 5 minutes ago
Chile, 6 minutes ago
Mexico, 7 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: Post-imputation plot
by
LChart
3.9k
Imputation takes what? A day or two of compute time? Just re-do it.
Comment: How to access TCGA samples that were treated with a specific drug?
by
Qroid
▴
40
Thanks. Really appreciate your help with this. This site is such a great resource.
The methods aren't totally clear on how they're gettin…
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 --…
Traffic: 1880 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