5 minutes ago by
mawigoj318
•
0
0
votes
0
replies
5
views
0
votes
0
replies
27
views
1 hour ago by
Sergio
•
0
2
votes
4
replies
104
views
0
votes
1
reply
30
views
0
votes
0
replies
21
views
2 hours ago by
newuser2024
•
0
0
votes
0
replies
24
views
0
votes
1
reply
36
views
0
votes
0
replies
35
views
4 hours ago by
carlopecoraro2
★
2.5k
795
votes
167
replies
141k
views
109 follow
updated 3 months ago by
Biostar
2.7k
•
written 7.4 years ago by
Istvan Albert
100k
0
votes
0
replies
37
views
0
votes
0
replies
54
views
0
votes
1
reply
100
views
1
vote
2
replies
116
views
updated 7 hours ago by
analyst
▴
20
•
written 12 hours ago by
lorena9132
•
0
0
votes
0
replies
53
views
7
votes
2
replies
191
views
updated 12 hours ago by
geneontologyhelp
▴
390
•
written 1 day ago by
catherine.teyssier
•
0
0
votes
1
reply
140
views
updated 13 hours ago by
Istvan Albert
100k
•
written 1 day ago by
Abeer
•
0
0
votes
4
replies
215
views
0
votes
1
reply
85
views
updated 7 hours ago by
Mensur Dlakic
★
27k
•
written 14 hours ago by
benguyarenbeyaz98
•
0
0
votes
2
replies
149
views
updated 3 hours ago by
b.contreras.moreira
▴
170
•
written 14 hours ago by
v.berriosfarias
▴
140
2
votes
1
reply
143
views
1
vote
1
reply
109
views
updated 14 hours ago by
Pierre Lindenbaum
161k
•
written 15 hours ago by
Biostar
2.7k
1
vote
1
reply
95
views
updated 15 hours ago by
GenoMax
141k
•
written 16 hours ago by
heelpPlease
•
0
2
votes
9
replies
758
views
0
votes
10
replies
327
views
0
votes
1
reply
98
views
updated 16 hours ago by
bk11
★
2.3k
•
written 16 hours ago by
alphaflylizard
•
0
3
votes
3
replies
158
views
0
votes
3
replies
185
views
updated 13 hours ago by
Istvan Albert
100k
•
written 18 hours ago by
Dylan
•
0
0
votes
1
reply
83
views
updated 18 hours ago by
Pierre Lindenbaum
161k
•
written 18 hours ago by
Lada
▴
30
4
votes
11
replies
438
views
3
votes
7
replies
428
views
0
votes
0
replies
62
views
20 hours ago by
ohtang7
▴
40
3
votes
0
replies
83
views
updated 20 hours ago by
Ram
43k
•
written 20 hours ago by
carlopecoraro2
★
2.5k
2
votes
2
replies
380
views
updated 21 hours ago by
Pierre Lindenbaum
161k
•
written 8 months ago by
AshleeThomson
▴
80
0
votes
1
reply
112
views
8
votes
5
replies
4.8k
views
0
votes
5
replies
213
views
5
votes
4
replies
584
views
6 hours ago by
kirillkirilenko
▴
40
0
votes
0
replies
67
views
0
votes
3
replies
339
views
0
votes
0
replies
76
views
1
vote
3
replies
175
views
0
votes
3
replies
176
views
1
vote
1
reply
136
views
updated 1 day ago by
Michael
54k
•
written 1 day ago by
michael.flower.14
▴
180
1
vote
3
replies
208
views
10 hours ago by
Art1ess
•
0
0
votes
1
reply
110
views
updated 20 hours ago by
bk11
★
2.3k
•
written 1 day ago by
Susmita Mandal
▴
110
0
votes
1
reply
113
views
updated 23 hours ago by
GenoMax
141k
•
written 1 day ago by
sarahawan92
▴
10
0
votes
3
replies
467
views
updated 1 day ago by
atharvakarkare14
▴
10
•
written 5 days ago by
Ashok
•
0
1
vote
1
reply
142
views
0
votes
1
reply
178
views
updated 13 hours ago by
Istvan Albert
100k
•
written 1 day ago by
qudrat.nii
▴
10
0
votes
0
replies
148
views
Recent Votes
Recent Locations •
All
USA, 1 minute ago
Russia, 2 minutes ago
Australia, 2 minutes ago
Greece, 4 minutes ago
United States, 5 minutes ago
Netherlands, 6 minutes ago
Greenland, 7 minutes ago
Recent Awards •
All
Popular Question to
sehriban.buyukkilic
▴
10
Popular Question to
O.rka
▴
710
Popular Question to
Akash D
▴
40
Popular Question to
subhiksha
▴
30
Popular Question to
v.berriosfarias
▴
140
Popular Question to
AdviceSeeker
•
0
Recent Replies
Comment: To get p-values for the TPM
by
ATpoint
82k
Seconding that. Just use established pipelines, tximport => DESeq2, get your stats and call it a day. Custom pipelines paired with little e…
Comment: Should I remove unlocalized scaffols in reference genome before alignment?
by
njornet
▴
20
I don't want reads incorrectly aligned to these scaffolds and loose information of relevant regions, but as you said that probably won't ha…
Comment: To get p-values for the TPM
by
dsull
★
5.8k
Your post should be a "com, not an "answer". Use "Add Comment" to request clarifications on an answer someone has provided.
tximport can t…
Comment: Use of Kraken output for functional analysis
by
gv
•
0
Hello,
you can use kraken-biom [kraken_biom.py] tool to get your Biom file from input kreport
cheers,
Comment: To get p-values for the TPM
by
VITALA
•
0
sir, deseq2 takes counts as inputs rightfor the hypothesis testing /to see the variance between the two groups, but in my case what i want …
Answer: To get p-values for the TPM
by
dsull
★
5.8k
There are plenty of RSEM -> tximport -> DESeq2 tutorials online. Just follow one of those.
DESeq2 will give you "p values" based on a Wa…
Comment: Is it Acceptable to Have Uniform Quality Scores in a FASTQ File?
by
dsull
★
5.8k
I agree for the most part. However, Heng Li has argued that the one application that they are essential for is short read variant calling. …
Comment: interpretartion of a vcf file
by
samuelkalandarov2002
▴
10
In my case , there is only one sample :
here is an example of a some variants generated using minipileup :
#CHROM POS ID REF ALT QUAL FI…
Comment: How to calculate identity percentage between proteins contained in a FASTA file?
by
b.contreras.moreira
▴
170
This should work if you know your sequences are related and can be globally aligned; otherwise it is safer to compute local alignments (for…
Comment: How to compare the quality of assemblies
by
kirillkirilenko
▴
40
A haploid assembly is our goal. For purging we used prefix.p_ctg.gfa (assembly graph of primary contigs).
Comment: Is it Acceptable to Have Uniform Quality Scores in a FASTQ File?
by
Istvan Albert
100k
What I mean is that no sequencing run can be calibrated with the claimed precision. Where it could correctly distinguish between basecalls …
Comment: HaplotypeCaller - only SNPs
by
analyst
▴
20
After HaplotypeCaller, you can use gatk SelectVariants to extract snps or indels from vcf file ([link to command][1])
[1]: https://gatk…
Comment: GTF file for Rhinolophus sinicus
by
atowns21
•
0
Ah gotcha. I guess what doesn't make sense to me is why a [paper][1] published in 2022 uses that reference genome.
[1]: https://www.na…
Answer: Wilcox test using data slot (log normalized count values) of scRNA-seq between t
by
yxwucq
•
0
The best way is to generate a pseudo-bulk aggregation then apply edgeR or DESeq2. You can also directly use wilcoxon on sc-level, since man…
Comment: How to solve this RoseTTAFold colaboratory error?
by
Mensur Dlakic
★
27k
There is a dedicated Discord group that deals with everything related to ColabFold and its derivatives. Below is an invitation to join that…
Traffic: 2252 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