0
votes
11
replies
467
views
0
votes
1
reply
397
views
updated 22 hours ago by
ginellegrenier
•
0
•
written 4 months ago by
Clayton
•
0
0
votes
2
replies
209
views
0
votes
2
replies
188
views
0
votes
3
replies
170
views
0
votes
2
replies
162
views
0
votes
1
reply
106
views
updated 17 hours ago by
ATpoint
82k
•
written 17 hours ago by
AaronJaime
•
0
1
vote
0
replies
80
views
0
votes
0
replies
72
views
0
votes
2
replies
70
views
0
votes
0
replies
68
views
0
votes
0
replies
65
views
21 hours ago by
synat.keam
▴
100
0
votes
0
replies
63
views
20 hours ago by
Emily
▴
10
0
votes
0
replies
59
views
0
votes
0
replies
53
views
4 hours ago by
HarperReed
•
0
0
votes
0
replies
44
views
1
vote
0
replies
43
views
0
votes
0
replies
42
views
7 hours ago by
Nargis
•
0
0
votes
0
replies
38
views
Recent Votes
Recent Locations •
All
Germany, just now
United Kingdom, just now
United Kingdom, 1 minute ago
Chile, 4 minutes ago
United States, 5 minutes ago
Belgium, Brussels, 5 minutes ago
Brazil, 6 minutes ago
Recent Awards •
All
Supporter to
Jalil Sharif
▴
80
Popular Question to
sil_bioinfo
▴
40
Popular Question to
sapuizait
▴
10
Popular Question to
zdiazmar
▴
30
Popular Question to
hkarakurt
▴
180
Recent Replies
Comment: ScRNA data question
by
starswillfade
▴
10
I just thought it was weird that considering each dot is a cell their expressions were all on a single line instead of being spread out lik…
Comment: ScRNA data question
by
starswillfade
▴
10
![enter image description here][1] I am already using Seurat V5 I think. I am using SCTransform as it was recommended by the seurat page. I…
Comment: genome assembly records not present in assembly_summary.txt
by
GenoMax
141k
Can you clarify what `metainfo` you are referring to?
The accession that you refer to does exist in [**GenBank assembly_summary file**][1…
Comment: what is the purpose of indexing the reference genome (Kallisto)
by
i.sudbery
19k
Specifically:
If we want to look up all the places where a 31mer is in a genome without and index, we have to compare that 31 to the first…
Answer: How Can We Find The Info For 3'Utr And 5'Utr In Gencode Gtf File?
by
benformatics
3.9k
This is way easier to do solely in R now 10 years later.
library(GenomicFeatures)
library(rtracklayer)
## import GTF…
Answer: what is the purpose of indexing the reference genome (Kallisto)
by
dsull
★
5.8k
I'll see if I can explain things in super simple terms (albeit with some abuse of the actual technical details) to provide a conceptual und…
Answer: How Can We Find The Info For 3'Utr And 5'Utr In Gencode Gtf File?
by
Jalil Sharif
▴
80
The updated code in R using rtracklayer for reading a gtf file.
https://github.com/jalilsharif/gtf_utr_fix_r/blob/main/gencode_utr_fix_d…
Comment: Rare Disease Variant Pathway Analysis
by
The_PyPanda
▴
10
Thank you LauferVA,
Your advice has been useful and I now a lot to think about and read.
Also, I just wanted to clarify I do not ha…
Comment: CDS vs cDNA vs transcript for mapping RNA-Seq reads
by
Antonio R. Franco
★
5.1k
You cannot do it with Kallisto either. In fact, the indexation will fail in attempting to index a genome file
Comment: PCA plot
by
ATpoint
82k
What is your question? Add details and clarity. Ask a precise question and please avoid opening more questions on the same underlying issue…
Comment: genome assembly records not present in assembly_summary.txt
by
Joe
21k
If you have the accession numbers can you not use something like `eutils`?
Comment: Create a new bed file with all pairwise combinations between two other bed files
by
Pierre Lindenbaum
161k
> Next, I tried using bedtools window
but in your original post you said
> tried finding the intersection of these bed files using bedto…
Comment: How to trim transcripts using information from NCBI contamination screen report
by
Lada
▴
30
Thank you very much! I tried it out! This is a handy tool useful for many different applications, and in regards to my problem - although …
Comment: Create a new bed file with all pairwise combinations between two other bed files
by
J
•
0
Thank you for replying Pierre.
I first added a third column to the SNP bed file, so that I would get a range of 1 for each SNP
awk 'B…
Comment: Create a new bed file with all pairwise combinations between two other bed files
by
Pierre Lindenbaum
161k
> using bcftools
Show us what you tried
Traffic: 2802 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