2.2 years ago by
Tully
•
0
0
votes
0
replies
445
views
3
votes
7
replies
2.7k
views
updated 2.2 years ago by
ATpoint
89k
•
written 2.2 years ago by
yoshifumimiya
▴
50
3
votes
2
replies
1.2k
views
0
votes
0
replies
616
views
2.2 years ago by
sidrah.maryam
▴
70
3
votes
2
replies
988
views
3
votes
7
replies
2.7k
views
2.2 years ago by
Hendricks27
▴
20
0
votes
0
replies
1.4k
views
0
votes
17
replies
5.6k
views
updated 2.2 years ago by
kenneditodd
▴
50
•
written 2.8 years ago by
Shagnik
•
0
0
votes
7
replies
1.7k
views
3
votes
4
replies
1.8k
views
2
votes
2
replies
1.1k
views
3
votes
3
replies
1.4k
views
3
votes
2
replies
1.2k
views
2.2 years ago by
DanielEB_fisk
▴
20
0
votes
3
replies
1.1k
views
updated 2.2 years ago by
GenoMax
154k
•
written 2.2 years ago by
elielsonveloso
•
0
0
votes
4
replies
1.4k
views
0
votes
2
replies
1.3k
views
2.2 years ago by
zhangdengwei
▴
210
0
votes
1
reply
1.9k
views
2
votes
1
reply
697
views
updated 2.2 years ago by
ATpoint
89k
•
written 2.2 years ago by
Amber Lisa
•
0
0
votes
0
replies
552
views
0
votes
0
replies
536
views
updated 2.2 years ago by
Ram
45k
•
written 2.2 years ago by
mail2steff
▴
70
0
votes
6
replies
2.6k
views
0
votes
3
replies
2.1k
views
1
vote
1
reply
1.9k
views
2.2 years ago by
Hatchet
▴
10
3
votes
7
replies
2.0k
views
2
votes
3
replies
2.4k
views
updated 2.2 years ago by
Zhenyu Zhang
★
1.3k
•
written 2.2 years ago by
ConvolutedGenome
▴
60
11
votes
5
replies
1.8k
views
0
votes
0
replies
588
views
0
votes
0
replies
649
views
2.2 years ago by
ExtentHonest56
▴
30
28
votes
13
replies
18k
views
11 follow
2
votes
1
reply
786
views
3
votes
5
replies
3.2k
views
0
votes
0
replies
910
views
11
votes
6
replies
23k
views
6 follow
0
votes
5
replies
1.6k
views
2.2 years ago by
samin415
•
0
0
votes
1
reply
898
views
updated 2.2 years ago by
Basti
★
2.1k
•
written 2.2 years ago by
daria.kostiniuk
•
0
2
votes
3
replies
1.1k
views
0
votes
0
replies
479
views
0
votes
1
reply
914
views
updated 2.2 years ago by
GenoMax
154k
•
written 2.2 years ago by
amrendra.niper
•
0
2
votes
0
replies
3.8k
views
updated 2.2 years ago by
Ram
45k
•
written 2.2 years ago by
Ming Tommy Tang
★
4.7k
0
votes
0
replies
756
views
2
votes
4
replies
1.8k
views
0
votes
0
replies
545
views
0
votes
0
replies
571
views
5
votes
4
replies
1.3k
views
updated 2.2 years ago by
Ming Tommy Tang
★
4.7k
•
written 2.2 years ago by
Lee
▴
10
0
votes
3
replies
2.5k
views
updated 2.2 years ago by
Manuela
•
0
•
written 2.2 years ago by
microorganism_001
▴
30
19
votes
7
replies
8.4k
views
Tutorial:
scRNA-seq CITE-seq-count bioinformatics
updated 2.2 years ago by
ATpoint
89k
•
written 5.5 years ago by
colindaven
8.0k
0
votes
0
replies
505
views
2.2 years ago by
RM123
▴
10
0
votes
0
replies
488
views
2.2 years ago by
Lívia
•
0
3
votes
4
replies
2.5k
views
22
votes
14
replies
28k
views
11 follow
updated 2.2 years ago by
elina2410
•
0
•
written 10.5 years ago by
sumithrasank75
▴
140
Recent Votes
Recent Locations •
All
Oviedo, 2 minutes ago
United States, 4 minutes ago
United Kingdom, 6 minutes ago
Germany, 8 minutes ago
Finland, 8 minutes ago
United States, 11 minutes ago
United States, 12 minutes ago
Recent Awards •
All
Popular Question to
Apprentice
▴
190
Scholar to
yura.grabovska
▴
830
Popular Question to
Assa Yeroslaviz
★
1.9k
Popular Question to
DdogBoss
▴
20
Popular Question to
curious
▴
890
Popular Question to
Juke34
9.3k
Popular Question to
DBScan
▴
530
Recent Replies
Comment: Quantification using salmon in alignment-based mode after minimap2 run
by
Rob
7.1k
As @atpoint suggests, you must align against the transcriptome. Also, the other relevant flags should be set (i.e. `--secondary=no` will di…
Answer: Quantification using salmon in alignment-based mode after minimap2 run
by
ATpoint
89k
Yes, must strictly be transcriptome. Reference from developer: https://www.biostars.org/p/9556364/
Comment: Errors with RSEM/bowtie2
by
Olivia
•
0
Yes, they removed the adapters, so I did not have to do extra steps for this (other than Trimmomatic within Trinity to get rid of short con…
Answer: infercnv error at STEP 18 - file descriptor is too large for select()
by
yura.grabovska
▴
830
Noticed that running `infercnv::CreateInfercnvObject()` generates a warning:
```
WARN [2025-10-06 14:43:38] Please use "options(scipen = …
Comment: Which aligner is more suitable for ONT R10.4.1 Dorado-corrected reads: minimap2
by
tungsega
▴
10
Thank you for your reply.
I’m currently trying to perform alignments using both aligners, but I wanted to ask if anyone has conducted a si…
Comment: Which aligner is more suitable for ONT R10.4.1 Dorado-corrected reads: minimap2
by
colindaven
8.0k
Good summary. I never tried winnowmap despite it's apparent advantages. If you have really repeat rich regions like centromeres that it may…
Comment: Need Help : JGI IMG Bulk Download
by
GenoMax
154k
Please post direct links to software you mention. Not sure why you are using LinkedIn short URL's.
Historically downloads from JGI have be…
Comment: Hifiasm is getting killed while trying to assemble a genome
by
pranavdatar01
•
0
This is the paper: https://doi.org/10.3389/fevo.2022.850817 (Genome of Varanus salvator macromaculatus (Asian Water Monitor) Reveals Adapta…
Comment: How to create a consensus of a contig with samtools or bbmap?
by
lieven.sterck
16k
great to hear!
and yes, spades in stead of samtools makes much more sense :-)
Answer: Nextflow: How to format input tuple for STAR_ALIGN process with STAR index direc
by
Pierre Lindenbaum
166k
> align_ch returns tuples like [sample_name, [read1, read2]]. I want aligned_input tuples to look like [index_dir, sample1, read1, read2].
…
Comment: How to convert gff to Sequin format with gff3-to-tbl?
by
GenoMax
154k
So should your command not be (assuming these are the right files) ?
$ gff3-to-tbl .../pharokka.gff .../Annotation/pharokka_cds_final…
Comment: How to convert gff to Sequin format with gff3-to-tbl?
by
marongiu.luigi
▴
760
ADDENDUM: I have seen that pharokka already provides a tbl file; anyway, the question remains: if I needed to convert a gff to sequin with …
Comment: How to convert gff to Sequin format with gff3-to-tbl?
by
marongiu.luigi
▴
760
Thank you, I have updated the title as suggested. But in the command, there a gff, a tsv, and a protein fasta. The list of files is:
```
$ …
Answer: How to convert gff to Sequin format?
by
GenoMax
154k
> $ gff3-to-tbl .../pharokka.gff .../Annotation/pharokka_cds_final_merged_output.tsv .../Consensus/reference.fasta .../Annotation/phanotate…
Comment: Errors with RSEM/bowtie2
by
GenoMax
154k
> Could this be an issue caused by the sequencing facility or just that they are in fact out of sync?
We have no way to know. Did the sequ…
Traffic: 3678 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