0
votes
0
replies
6
views
0
votes
3
replies
183
views
0
votes
0
replies
51
views
836
votes
167
replies
174k
views
111 follow
updated 10 days ago by
Biostar
3.5k
•
written 8.4 years ago by
Istvan Albert
102k
8
votes
18
replies
3.0k
views
8 follow
updated 9 hours ago by
jena
▴
320
•
written 19 months ago by
fishingline37
•
0
1
vote
2
replies
133
views
updated 12 hours ago by
dsull
★
7.4k
•
written 15 hours ago by
marc.zimmerli
▴
10
0
votes
0
replies
60
views
16 hours ago by
Tuấn Anh
•
0
2
votes
5
replies
515
views
1
vote
1
reply
130
views
0
votes
1
reply
104
views
updated 4 hours ago by
Jordan M Eizenga
▴
690
•
written 19 hours ago by
Pau
•
0
0
votes
0
replies
71
views
19 hours ago by
frarodmar17
•
0
0
votes
3
replies
333
views
1
vote
2
replies
169
views
1
vote
2
replies
213
views
1 day ago by
RJDan
•
0
0
votes
3
replies
763
views
4
votes
0
replies
146
views
0
votes
4
replies
221
views
0
votes
0
replies
164
views
1
vote
8
replies
658
views
0
votes
0
replies
167
views
1
vote
1
reply
306
views
updated 2 days ago by
Michael
55k
•
written 5 days ago by
Chatchapon
•
0
1
vote
4
replies
380
views
updated 3 days ago by
Mensur Dlakic
★
29k
•
written 3 days ago by
vladimir_vinarsky
•
0
0
votes
2
replies
251
views
0
votes
4
replies
396
views
4 days ago by
Synanth
•
0
3
votes
2
replies
1.3k
views
updated 4 days ago by
Gordon Smyth
★
7.9k
•
written 3.2 years ago by
Assa Yeroslaviz
★
1.9k
0
votes
0
replies
224
views
5 days ago by
gagi1993
•
0
0
votes
1
reply
279
views
1
vote
2
replies
805
views
3
votes
2
replies
397
views
1
vote
3
replies
388
views
0
votes
0
replies
386
views
0
votes
1
reply
272
views
updated 5 days ago by
GenoMax
150k
•
written 5 days ago by
pinheirofabiano
▴
110
0
votes
0
replies
1.4k
views
1
vote
3
replies
368
views
1
vote
3
replies
373
views
0
votes
5
replies
401
views
3
votes
2
replies
334
views
0
votes
0
replies
262
views
0
votes
1
reply
364
views
updated 6 days ago by
Istvan Albert
102k
•
written 7 days ago by
Eltercertopico
•
0
1
vote
4
replies
542
views
6 days ago by
Fatemeh
▴
40
1
vote
3
replies
419
views
1
vote
2
replies
364
views
0
votes
1
reply
340
views
9
votes
5
replies
624
views
6 follow
updated 2 days ago by
kalavattam
▴
350
•
written 7 days ago by
shelkmike
★
1.5k
1
vote
9
replies
767
views
0
votes
0
replies
263
views
0
votes
3
replies
394
views
1
vote
3
replies
414
views
1
vote
4
replies
459
views
3
votes
2
replies
444
views
Recent Votes
Recent Locations •
All
Russia, 1 minute ago
Leuven, Belgium, 2 minutes ago
Japan, 3 minutes ago
Russian Federation, 5 minutes ago
France, 10 minutes ago
Belgium, Brussels, 11 minutes ago
Karolinska Institutet, Sweden, 12 minutes ago
Recent Awards •
All
Popular Question to
doncheng1
•
0
Popular Question to
xiaoleiusc
▴
140
Teacher to
Zhenyu Zhang
★
1.3k
Popular Question to
pablo
▴
330
Popular Question to
ZheFrench
▴
590
Recent Replies
Comment: Proper preprocessing for ML after limma, quantile normalization and log2 transfo
by
Sib
▴
60
**No, that’s not correct.** I carefully read your response multiple times (at least 10 times) before formulating my follow-up questions bas…
Answer: Transcript ID
by
Meeru
•
0
Yes, they’re the same. The “-0” is likely just an extra tag from a tool or database, not part of the official Ensembl ID.
Answer: Transcript ID
by
cheong
•
0
Hi ATpoinrt,
Thank you!
I saw this in the results generated by a software called flair (https://doi.org/10.1038/s41467-020-15171-6)
…
Comment: Is vg toolkit suitable for haplotype calling?
by
Jordan M Eizenga
▴
690
When you say "extract the haplotypes", are you referring to the read alignments themselves, or do you mean inferring the underlying haploty…
Answer: How to limit fasta header to 40 characters?
by
jena
▴
320
Looks like a job for [bioawk][1]. For example, if you just need the IDs (like in the seqkit answer above), you can do this:
bioawk -c …
Comment: Transcript level quantification and gene length scaling for rRNA depleted librar
by
dsull
★
7.4k
Haven’t had time to think about this in its entirety but lncRNAs are poorly annotated (in part because their biology is tricky) and TPM len…
Comment: Transcript level quantification and gene length scaling for rRNA depleted librar
by
ATpoint
87k
Interesting observation. Can you add plots to illustrate this? For example for this gene, the salmon output per samples, the tximport resul…
Comment: Proper preprocessing for ML after limma, quantile normalization and log2 transfo
by
Mensur Dlakic
★
29k
I have no good idea how to work with data of unknown origin and unknown pre-processing steps.
Somehow, you seem to be reading my answers s…
Comment: Proper preprocessing for ML after limma, quantile normalization and log2 transfo
by
Sib
▴
60
Unfortunately, I cannot use raw data because I am teaching students who are not yet able to analyze raw data. Instead, we use a series matr…
Answer: Small‑Lab Data Management & Analytics Tool – What are your biggest pain points?
by
Darked89
4.7k
I think the best is to strip functionalities to bare essentials: secure storage of the data plus metadata and the backups. For that you may…
Comment: Small‑Lab Data Management & Analytics Tool – What are your biggest pain points?
by
karl.stamm
4.1k
I've seen a few of these posts, and you seem to be highlighting that it is 'lightweight'. I think that's a bad move - what do you think th…
Answer: landscape of RNA types and their functions/ scRNA
by
ATpoint
87k
You are missing the point here. This statement you cite is not about RNA function. What people did there was to add synthetic RNA to the li…
Answer: miRNA alignment and count generation
by
i.sudbery
21k
If you are aligning to a transcriptome based index (like the mature or hairpin fasta files), then you don't need a gff. The gff tells read …
Comment: Analysing gene CNV from TCGA using TCGAbiolinks
by
Matt
•
0
Great, thank you, that's very helpful. It seems if I filter to only query the 'primary tumour' samples from GDC all the samples use the ABS…
Comment: bbsplit : How to configure ambiguous/ambiguous2 parameters in order to consider
by
ZheFrench
▴
590
#name %unambiguousReads unambiguousMB %ambiguousReads ambiguousMB unambiguousReads ambiguousReads assignedReads assignedBases
prima…
Traffic: 2610 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