Tutorial:
CITEseq tutorial
9 hours ago by
Ming Tommy Tang
★
3.6k
0
votes
0
replies
55
views
5
votes
2
replies
4.4k
views
72
votes
27
replies
27k
views
16 follow
updated 2 days ago by
snardeli
•
0
•
written 9.8 years ago by
Istvan Albert
99k
Recent Votes
Recent Locations •
All
France/Nantes/Institut du Thorax - INSERM UMR1087, 2 minutes ago
Hinxton, UK, 4 minutes ago
United States, 6 minutes ago
India, 8 minutes ago
outer space, 9 minutes ago
United States, 24 minutes ago
United States, 25 minutes ago
Recent Awards •
All
Scholar to
jared.andrews07
★
16k
Popular Question to
Mr Locuace
▴
150
Popular Question to
benjamin.pyenson
•
0
Popular Question to
Malachi Griffith
19k
Popular Question to
awhale01
•
0
Popular Question to
hkarakurt
▴
180
Scholar to
rpolicastro
12k
Recent Replies
Comment: Resolving over clustered NGS with Q-scores
by
sam.himes92
•
0
The system that we used was [Aviti][1]. Our sequencing core was the one who quantified the loading/library concentration. Sorry I don't hav…
Comment: Where can I get a list of SNPs mapping overlapping genes in humans?
by
Alex Reynolds
35k
I modified the answer with an approach for that use case.
Comment: Where can I get a list of SNPs mapping overlapping genes in humans?
by
Ram
41k
OP is looking for overlapping genes - genes with presumably different gene IDs that share some loci. I think the `genes.bed` creation logic…
Comment: Where can I get a list of SNPs mapping overlapping genes in humans?
by
Alex Reynolds
35k
Note: The file `snps.bed` will be very large. You'll need sufficient disk space for this step.
Answer: Where can I get a list of SNPs mapping overlapping genes in humans?
by
Alex Reynolds
35k
Given files `genes.bed` and `snps.bed`, you could do something like:
```
$ bedmap --echo --echo-map-id --delim '\t' genes.bed snps.bed > a…
Answer: How to add exon annotations to genome annotation
by
alex.zaccaron
▴
380
You can use [AGAT][1] to process your annotation file to add the missing exons. I believe `agat_convert_sp_gxf2gxf.pl -g no_exons.gff -o wi…
Comment: Annotation Visualization IGV
by
Pierre Lindenbaum
158k
and you got answer that should be validate (green tick), or people asked you questions but got no answers.
Comment: Annotation Visualization IGV
by
Pierre Lindenbaum
158k
you asked questions before: review, comment and/or validate them please: https://www.biostars.org/p/9530777/ ; https://www.biostars.org/p/9…
Comment: Ambient RNA removal method that generates whole (integer) counts
by
EK
•
0
Thanks, Jared. Sounds like rounding counts is the simplest approach for now. :)
Comment: Resolving over clustered NGS with Q-scores
by
Trivas
★
1.5k
Could you tell us which sequencer you used, how you quantified your library size and concentration, and what your loading concentration was…
Comment: Resolving over clustered NGS with Q-scores
by
sam.himes92
•
0
I should have mentioned, we ran both Read 1 and 2 well past the points of interest. For each read we ran 75 cycles.
Answer: Resolving over clustered NGS with Q-scores
by
Trivas
★
1.5k
It might be because Illumina recommends 26 cycles for Read 1: https://knowledge.illumina.com/instrumentation/general/instrumentation-genera…
Comment: Resolving over clustered NGS with Q-scores
by
ATpoint
78k
Has phiX been spiked in to increase nucleotide diversity.
Traffic: 1546 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