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24 results • Page
1 of 1
Sort: Rank
Rank
Views
Votes
Replies
0
votes
3
replies
46
views
Filtering Multi-sample VCF file for all except one Genotype
SNP
genotype
filter
variant
VCF
updated 6 minutes ago by
Jeremy Leipzig
22k • written 2 hours ago by
schmince
• 0
0
votes
1
reply
50
views
ERROR: Duplicate entry "..." in sam header; samtools view: failed to add PG line to the header
sort.
SAMtools.
BAM.
SAM.
updated 3 hours ago by
GenoMax
142k • written 3 hours ago by
Sony
▴ 10
5
votes
5
replies
139
views
Help with running egsea()
EGSEA
53 minutes ago by
Chris
▴ 280
0
votes
1
reply
74
views
Differentail gene expression results
differential
expression
gene
rna-seq
Deseq2
updated 5 hours ago by
ATpoint
82k • written 6 hours ago by
ahmad.sajad4541
• 0
1
vote
5
replies
127
views
UMI-Tools knee-method has great influence on the results of white list
single-cell
whitelist
UMI
RNA
UMI-Tools
updated 3 hours ago by
i.sudbery
19k • written 6 hours ago by
Assa Yeroslaviz
★ 1.8k
1
vote
1
reply
88
views
student
epitranscriptomics
updated 6 hours ago by
ATpoint
82k • written 6 hours ago by
useriwa
• 0
0
votes
0
replies
51
views
Imputation of missing genotypes
panel
beagle
imputation
7 hours ago by
analyst
▴ 30
0
votes
3
replies
106
views
trying to count a pattern in my fastq file using bbduk
java
bbduk
bbmap
fastq
updated 3 hours ago by
GenoMax
142k • written 7 hours ago by
Assa Yeroslaviz
★ 1.8k
0
votes
0
replies
44
views
Correlation Analysis
statistics
methylation
NGS
expression
8 hours ago by
Researcher
▴ 30
1
vote
2
replies
89
views
Repeated testing/data mining in RNA Seq
repeated
RNA-Seq
mining
testing
data
2 hours ago by
robert.flynn.21
• 0
1
vote
1
reply
68
views
Gene density plot
density
gene
updated 2 hours ago by
dthorbur
★ 1.9k • written 8 hours ago by
gubrins
▴ 290
1
vote
3
replies
118
views
Comparative Analysis of Algorithms for Implementing the FM-Index: Correctness, Complexity, and Use Cases
fmindex
bwt
updated 8 hours ago by
Michael
54k • written 10 hours ago by
qwertyuiop26
• 0
0
votes
0
replies
70
views
Get Paired TCRa/b from MIXCR
python
r
mixcr
tcr_seq
21 hours ago by
Scott McKay
▴ 30
0
votes
0
replies
72
views
Cellphonedb results
cpdb
visulization
cellphonedb
21 hours ago by
piotto
▴ 20
1
vote
6
replies
381
views
Question regarding WGCNA
WGCNA
Network-construction
updated 3 hours ago by
andres.firrincieli
3.6k • written 3 days ago by
deepak
• 0
0
votes
1
reply
128
views
16S rRNA microbiome differential abundance analysis with DESeq2 finds same microbial Genus in both groups.
microbiome
16S
DESeq2
updated 7 hours ago by
andres.firrincieli
3.6k • written 1 day ago by
Antonio
• 0
0
votes
1
reply
173
views
Problem with Seurat package in PercentageFeatureSet function
cell
single
updated 22 hours ago by
bk11
★ 2.4k • written 2 days ago by
Yoosef
▴ 60
0
votes
4
replies
289
views
HCL database download
database
HCL
human
updated 5 hours ago by
GenoMax
142k • written 3 days ago by
sooni
▴ 20
0
votes
5
replies
383
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 21 hours ago by
Chris Dean
▴ 390 • written 5 days ago by
sovrappensiero
▴ 90
2
votes
8
replies
490
views
How to access TCGA samples that were treated with a specific drug?
TCGA
RNA-seq
23 hours ago by
Qroid
▴ 40
0
votes
2
replies
226
views
RNA editing sites based on DNA seq and RNA seq
RNA-editing
5 hours ago by
Ahiad Chen Zion
• 0
3
votes
3
replies
221
views
Gene Specific coverage from WGS data
linux
WGS
Bioinformatics
SARS
CoV2
11 hours ago by
Adyasha
• 0
0
votes
4
replies
363
views
Highest variable features in single cell data
single-cell
7 hours ago by
carolofharvest
▴ 30
0
votes
0
replies
178
views
CellPhoneDB results
cellphonedb
cpdb
cell_surface_proteins
updated 21 hours ago by
GenoMax
142k • written 10 weeks ago by
piotto
▴ 20
24 results • Page
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Recent Votes
Answer: Understanding STAR output (Aligned.out.sam file)
Comment: High Malat-1 expression in single cell data
Comment: removeBatchEffect explained using base R linear models
Answer: From A List Of Gene Symbols To A Bed File With Tss Position
Comment: Help with running egsea()
Comment: Help with running egsea()
How Can I Interpret A Multiple Sequence Alignment?
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Recent Awards •
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Popular Question
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Maxine
▴ 40
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jleehan
▴ 120
Popular Question
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Chris
▴ 280
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★ 2.9k
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GenoMax
142k
Recent Replies
Comment: Filtering Multi-sample VCF file for all except one Genotype
by
Jeremy Leipzig
22k
The seven genotypes being 58025AA, 58025AG, 58051TT, 58051TC, 58051CC, 58057TT, 58057TC
Answer: TFs and Gene databases
by
jared.andrews07
★ 16k
See [TFlink](https://tflink.net/), [KnockTF2](https://bio.liclab.net/KnockTFv2/index.php), [TFBSDB](https://tfbsdb.systemsbiology.net/), an…
Comment: Filtering Multi-sample VCF file for all except one Genotype
by
GenoMax
142k
> Seven genotpyes have been sampled and all variants, which belong to one of those genotpyes are to be "erased" (or every other variant exc…
Comment: Filtering Multi-sample VCF file for all except one Genotype
by
Pierre Lindenbaum
161k
> , filter a multisample VCF file for all genotypes except one of them filter for what ?
Answer: Applying the metacell2 algorithm using python
by
Wayne
★ 2.0k
I had hoped things like [this Jupyter notebook for the rabbit data analysis](https://nbviewer.org/github/tanaylab/rabembflow/blob/master/2-…
Comment: Help with running egsea()
by
1769mkc
★ 1.2k
please provide the design matrix mean the metadata of the model fit2 which is there in the code . i guess other users can help
Comment: Applying the metacell2 algorithm using python
by
JACKY
▴ 140
The repo does not provide any valuable information unfortunately. The Metacell algorithm they provide in the vignette is missing the metagr…
Comment: Repeated testing/data mining in RNA Seq
by
robert.flynn.21
• 0
Thanks! I'll give it a go.
Comment: Applying the metacell2 algorithm using python
by
Wayne
★ 2.0k
Yes, they are very clear about this. The page about the Vignettes says: >"They are not meant as a comprehensive documentation of all the fe…
Comment: Gene density plot
by
dthorbur
★ 1.9k
This sounds like it would be a simple task in either python or R. Read data in, potentially with a library like `data.table` in `R`, depend…
Answer: HLA-HD tool for genomic imputation
by
Javier
• 0
Hi, I just solved the same error. In my case, it was because I misunderstood the instructions. hlahd.sh -t 4 *-f ~/hlahd.1.7.0/fr…
Comment: Question regarding WGCNA
by
andres.firrincieli
3.6k
Ok, then. You likely have a scale free topology that look like this: [link][1] In this situation you should pick the power value with an …
Comment: Bioinformatics Analyst - Laboratory Medicine and Pathology
by
Ram
43k
Why did you add this as an answer to a random post? I'm moving this to a comment. To answer your question, read this post: https://www.bio…
Comment: ERROR: Duplicate entry "..." in sam header; samtools view: failed to add PG lin
by
GenoMax
142k
> I don't understand why SAM header has "Duplicate entry" and what should I do in this case. Your reference sequence must have fasta head…
Comment: UMI-Tools knee-method has great influence on the results of white list
by
i.sudbery
19k
I can't immediately see anything wrong. The log file should contain lines saying how many reads were parsed, how many reads matched the bar…
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