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27 results • Page
1 of 1
Sort: Votes
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4
votes
6
replies
3.8k
views
How to interpret DEXseq results in therms of significance
DEXseq
RNA-Seq
exon
updated 23 hours ago by
Sara
▴ 30 • written 6.7 years ago by
Lila M
★ 1.2k
3
votes
3
replies
219
views
Gene Specific coverage from WGS data
linux
WGS
Bioinformatics
SARS
CoV2
6 hours ago by
Adyasha
• 0
2
votes
8
replies
484
views
How to access TCGA samples that were treated with a specific drug?
TCGA
RNA-seq
18 hours ago by
Qroid
▴ 40
1
vote
2
replies
26
views
Help with running egsea()
EGSEA
3 minutes ago by
Chris
▴ 260
1
vote
4
replies
327
views
Question regarding WGCNA
WGCNA
Network-construction
updated 20 hours ago by
andres.firrincieli
3.6k • written 3 days ago by
deepak
• 0
1
vote
3
replies
99
views
Comparative Analysis of Algorithms for Implementing the FM-Index: Correctness, Complexity, and Use Cases
fmindex
bwt
updated 3 hours ago by
Michael
54k • written 5 hours ago by
qwertyuiop26
• 0
0
votes
1
reply
171
views
Problem with Seurat package in PercentageFeatureSet function
cell
single
updated 17 hours ago by
bk11
★ 2.4k • written 2 days ago by
Yoosef
▴ 60
0
votes
0
replies
64
views
Cellphonedb results
cpdb
visulization
cellphonedb
16 hours ago by
piotto
▴ 20
0
votes
5
replies
381
views
Spike-in control found in raw reads (16S amplicon seq) but not picked up by DADA2 - where to go from here?
nf-core
16S
amplicon
dada2
ampliseq
updated 16 hours ago by
Chris Dean
▴ 390 • written 4 days ago by
sovrappensiero
▴ 90
0
votes
0
replies
63
views
Get Paired TCRa/b from MIXCR
python
r
mixcr
tcr_seq
16 hours ago by
Scott McKay
▴ 30
0
votes
0
replies
178
views
CellPhoneDB results
cellphonedb
cpdb
cell_surface_proteins
updated 16 hours ago by
GenoMax
142k • written 10 weeks ago by
piotto
▴ 20
0
votes
0
replies
65
views
how to downlad slices of CRAM fro ICGC ARGO
icgc
samtools
cram
22 hours ago by
Javier
• 0
0
votes
0
replies
36
views
Gene density plot
density
gene
4 hours ago by
gubrins
▴ 290
0
votes
0
replies
73
views
vdjtools
vdjtools
23 hours ago by
yueli7
▴ 250
0
votes
0
replies
27
views
Correlation Analysis
statistics
methylation
NGS
expression
3 hours ago by
Researcher
▴ 30
0
votes
4
replies
353
views
Highest variable features in single cell data
single-cell
2 hours ago by
carolofharvest
▴ 30
0
votes
0
replies
28
views
Imputation of missing genotypes
panel
beagle
imputation
2 hours ago by
analyst
▴ 30
0
votes
1
reply
120
views
16S rRNA microbiome differential abundance analysis with DESeq2 finds same microbial Genus in both groups.
microbiome
16S
DESeq2
updated 2 hours ago by
andres.firrincieli
3.6k • written 1 day ago by
Antonio
• 0
0
votes
1
reply
38
views
student
epitranscriptomics
updated 1 hour ago by
ATpoint
82k • written 2 hours ago by
useriwa
• 0
0
votes
0
replies
16
views
UMI-Tools knee-method has great influence on the results of white list
single-cell
whitelist
UMI
RNA
UMI-Tools
1 hour ago by
Assa Yeroslaviz
★ 1.8k
0
votes
4
replies
263
views
HCL database download
database
HCL
human
updated 1 hour ago by
GenoMax
142k • written 3 days ago by
sooni
▴ 20
0
votes
1
reply
25
views
Differentail gene expression results
differential
expression
gene
rna-seq
Deseq2
updated 1 hour ago by
ATpoint
82k • written 1 hour ago by
ahmad.sajad4541
• 0
0
votes
2
replies
131
views
Applying the metacell2 algorithm using python
single-cell
scanpy
cells
meta
python
1 hour ago by
JACKY
▴ 140
0
votes
1
reply
46
views
Repeated testing/data mining in RNA Seq
repeated
RNA-Seq
mining
testing
data
updated 50 minutes ago by
ATpoint
82k • written 3 hours ago by
robert.flynn.21
• 0
0
votes
1
reply
34
views
trying to count a pattern in my fastq file using bbduk
java
bbduk
bbmap
fastq
updated 45 minutes ago by
GenoMax
142k • written 2 hours ago by
Assa Yeroslaviz
★ 1.8k
0
votes
2
replies
197
views
RNA editing sites based on DNA seq and RNA seq
RNA-editing
33 minutes ago by
Ahiad Chen Zion
• 0
0
votes
0
replies
74
views
Cox Model with interaction item interpretation
Cox
22 hours ago by
Bine
▴ 60
27 results • Page
1 of 1
Recent Votes
Comment: Help with running egsea()
Comment: Question regarding WGCNA
Comment: Bacterial plasmid analysis
Comment: Bacterial plasmid analysis
The Biostar Herald for Monday, May 06, 2024
Comment: Comparative Analysis of Algorithms for Implementing the FM-Index: Correctness, C
Answer: Is therer any suggestions on mapping rate of WGBS data?
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Popular Question
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Papyrus
★ 2.9k
Popular Question
to
hkarakurt
▴ 180
Commentator
to
GenoMax
142k
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anasjamshed
▴ 120
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Recent Replies
Comment: Help with running egsea()
by
Chris
▴ 260
Thanks 1769mkc! I tried this tool. Gene expression of 2 groups is just slightly different (not hundred of differential express genes). The …
Comment: Help with running egsea()
by
1769mkc
★ 1.2k
https://metascape.org/ this is one of the ways to make life easier if you have the genes already from the differential list
Comment: RNA editing sites based on DNA seq and RNA seq
by
Ahiad Chen Zion
• 0
In those unaligned reads, I am looking for hyper-editing. But the alignment should be much higher
Comment: Bacterial plasmid analysis
by
GenoMax
142k
Once you have some of these basic issues sorted out you can create a `tools` post describing `pling`.
Comment: Bacterial plasmid analysis
by
Daria
▴ 30
Hi, you need to run it with `PYTHONPATH=<pling_path>` in front of the command (a bit clunky, I know -- will likely be fixed in the next ver…
Comment: trying to count a pattern in my fastq file using bbduk
by
GenoMax
142k
I don't think you can use N's in `literal=` since the match is literal as the option says. Depending where in the read this pattern is you …
Comment: Repeated testing/data mining in RNA Seq
by
ATpoint
82k
> As such, I am wondering what the protocol is here? My personal suggestion is to just do it and see what comes out. Multiple comparisons …
Comment: Applying the metacell2 algorithm using python
by
JACKY
▴ 140
I've followed this [vignette][1] [1]: https://tanaylab.github.io/metacells-vignettes/iterative.html Which is the only pipeline that d…
Comment: Bacterial plasmid analysis
by
GenoMax
142k
https://www.biostars.org/u/98332/ : This may be best posted as a new question since you are now running into a problem with tool usage.
Comment: Differentail gene expression results
by
ATpoint
82k
What is your question? See https://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.html which covers most relevan…
Comment: HCL database download
by
GenoMax
142k
Please post your solution as an answer.
Comment: student
by
ATpoint
82k
Please --- https://www.biostars.org/p/357878/ https://www.biostars.org/p/75548/ [Ten Simple Rules for Getting Help from Online Scientifi…
Comment: High Malat-1 expression in single cell data
by
carolofharvest
▴ 30
If rRNA genes have been mistakenly assigned to these genes, could it be expected that the percentage of ribosomal genes(rpl,rps) would be …
Comment: removeBatchEffect explained using base R linear models
by
dariober
14k
(+1) *"implementing" the method just using base R linear models.*: I find implementing from basic starting point to be one of the best, if …
Answer: Is therer any suggestions on mapping rate of WGBS data?
by
Papyrus
★ 2.9k
Mapping rate for bisulfite data is typically worse because of reduced complexity of the sequences. The efficiency will depend on your read …
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