2 hours ago by
Claire Watson
▴
60
0
votes
0
replies
22
views
0
votes
2
replies
51
views
0
votes
2
replies
70
views
2
votes
0
replies
47
views
839
votes
170
replies
179k
views
112 follow
updated 6 weeks ago by
Biostar
3.6k
•
written 8.5 years ago by
Istvan Albert
102k
2
votes
0
replies
41
views
2
votes
0
replies
42
views
2
votes
0
replies
49
views
0
votes
2
replies
83
views
0
votes
2
replies
90
views
0
votes
7
replies
222
views
updated 4 hours ago by
GenoMax
151k
•
written 21 hours ago by
ramiro.barrantes
▴
50
1
vote
1
reply
85
views
0
votes
1
reply
80
views
0
votes
1
reply
80
views
1
vote
1
reply
129
views
0
votes
1
reply
76
views
0
votes
2
replies
104
views
1
vote
1
reply
245
views
updated 1 day ago by
colindaven
7.6k
•
written 4 days ago by
emil.paulitz
•
0
0
votes
0
replies
92
views
0
votes
1
reply
139
views
0
votes
0
replies
136
views
0
votes
1
reply
472
views
0
votes
0
replies
143
views
2 days ago by
Physalia-courses
★
2.6k
0
votes
4
replies
2.0k
views
1
vote
0
replies
144
views
0
votes
1
reply
207
views
updated 3 days ago by
GenoMax
151k
•
written 3 days ago by
michael.dhar
•
0
2
votes
4
replies
887
views
0
votes
2
replies
280
views
0
votes
0
replies
176
views
8
votes
5
replies
388
views
updated 3 days ago by
GenoMax
151k
•
written 3 days ago by
sarahmanderni
▴
130
0
votes
0
replies
167
views
0
votes
1
reply
233
views
0
votes
0
replies
164
views
5
votes
4
replies
640
views
0
votes
1
reply
214
views
2
votes
2
replies
1.8k
views
4
votes
2
replies
283
views
3 days ago by
ATS
▴
10
1
vote
4
replies
299
views
0
votes
0
replies
186
views
4 days ago by
Physalia-courses
★
2.6k
0
votes
1
reply
229
views
updated 4 days ago by
ATpoint
88k
•
written 4 days ago by
radwa_noreen
•
0
0
votes
3
replies
345
views
0
votes
1
reply
260
views
4
votes
3
replies
402
views
updated 4 days ago by
colindaven
7.6k
•
written 5 days ago by
genomics_student
•
0
0
votes
1
reply
262
views
updated 4 days ago by
marco.barr
▴
170
•
written 4 days ago by
Kelly
•
0
2
votes
3
replies
649
views
4 days ago by
lijiangres
▴
20
0
votes
0
replies
232
views
4 days ago by
Gordon Smyth
★
8.1k
0
votes
0
replies
216
views
1
vote
3
replies
344
views
updated 4 days ago by
ATpoint
88k
•
written 5 days ago by
rajdeepboral00
▴
70
0
votes
1
reply
262
views
2
votes
8
replies
555
views
updated 4 days ago by
GenoMax
151k
•
written 6 days ago by
Luca Arbore
▴
10
Recent Votes
Recent Locations •
All
United States, 5 minutes ago
Canada, 25 minutes ago
Romania, 32 minutes ago
Columbus, OH, 32 minutes ago
UCLA, 36 minutes ago
Machhagan, 39 minutes ago
United States, 47 minutes ago
Recent Awards •
All
Popular Question to
Claire Watson
▴
60
Popular Question to
bioinfo
▴
160
Popular Question to
rbpdee
▴
50
Popular Question to
KABILAN
▴
130
Popular Question to
Luwell
•
0
Popular Question to
AIMAR
▴
10
Recent Replies
Comment: Heatmap for visualizing the differentially expressed genes in RNA-seq data
by
rfran010
★
1.5k
Generally, fold-changes can be hard to distinguish from TPMs between samples when TPM variability between genes is large. Gene-wise scaling…
Comment: HISAT2 or STAR
by
rfran010
★
1.5k
Generally, they are equivalent. They both are designed to handle spliced reads (e.g. RNA-seq) well.
HISAT2 may be better if you are on a m…
Comment: Error Scaffolding with RagTag
by
Bipin
•
0
[M::mm_idx_gen::73.687*1.32] collected minimizers
[M::mm_idx_gen::75.834*1.84] sorted minimizers
[M::main::75.834*1.84] loaded/built the in…
Comment: Identify transgene insert loci/copy number in nanopore De-novo assembly
by
ctmfarland
•
0
Thanks for the prompt response!
* min: 67, max: 93,862, avg: 3,626, q25: 2737, q75: 4406
* minION
* 1,150,160 reads total/used and calcula…
Comment: Error Scaffolding with RagTag
by
GenoMax
151k
Is there anything in `ragtag.scaffold.asm.paf.log` file?
Comment: Identify transgene insert loci/copy number in nanopore De-novo assembly
by
GenoMax
151k
> the average read length in my ONT library is ~3Kbp
What is the range of read lengths in this dataset? Was this run on a minION or larger…
Comment: How to deal with intermediate files
by
GenoMax
151k
Not sure I fully understand your question. Many of us use the local computer as a dumb terminal to get to the HPC where much of the work ha…
Comment: How to deal with intermediate files
by
ramiro.barrantes
▴
50
Yes, from my laptop I do the final reports with graphs, etc and all the code is source controlled with git. I am not computing anything on …
Comment: Heatmap for visualizing the differentially expressed genes in RNA-seq data
by
jared.andrews07
★
18k
Show example images and the code used to generate them. We can't see what you see, so it's hard to say if you are plotting things incorrect…
Comment: How to deal with intermediate files
by
GenoMax
151k
> One simpler way that is closer is for example to mount the locations on our HPC to my laptop and hence not having to transfer anything
A…
Comment: How to deal with intermediate files
by
ramiro.barrantes
▴
50
Thank you!! I am aware of all of those, however, they are not exactly what I am looking for: I could transfer data from one place to anothe…
Comment: Best pairwise alignment for insertion and deletion-containing sequences
by
rbpdee
▴
50
Thanks, @patrickdm! Let me give it a shot.
Answer: Best pairwise alignment for insertion and deletion-containing sequences
by
patrickdm
▴
260
Hello, I'd try tweaking the [Affine Gap Scores][1] of Align.PairwiseAligner(), and if those are not good enough, consider the possibilty to…
Comment: How to deal with intermediate files
by
dthorbur
★
3.0k
Fair point about the sensitivity of data. I don't work on human or other particularly sensitive data so never really thought about it.
Comment: How to deal with intermediate files
by
GenoMax
151k
Great list. Globus may be the perfect option, if it is already installed on HPC.
Something to consider before using any of the above. Not…
Traffic: 2543 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