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1,000 results • Page
5 of 20
Sort: Rank
Rank
Views
Votes
Replies
1
vote
2
replies
198
views
Interpretation of combined P values - RNA microarray meta analysis
metaanalysis
R
microarray
DExMA
combinedP
8 days ago by
hagl
▴ 10
0
votes
0
replies
154
views
BIOM format can contain tabular data ?
BIOM
phyloseq
biomformat
R
8 days ago by
chemokine-1
▴ 10
0
votes
4
replies
492
views
How to reduce the variation of CIBERSORTx results?
CIBERSORTx
deconcolution
7 days ago by
feather-W
• 0
0
votes
0
replies
234
views
Job:
Consultant to update a Snakemake workflow with the new Kubernetes executor plugin for Snakemake 8
Kubernetes
DevOps
executor
AWS
Snakemake
updated 8 days ago by
Michael
54k • written 8 days ago by
jonrkarr
▴ 100
0
votes
2
replies
217
views
Bedmethyl file format
bedmethyl
methylation
updated 7 days ago by
GenoMax
141k • written 8 days ago by
njornet
▴ 20
0
votes
0
replies
167
views
sequence table for DADA2 chimera filtering
OTU
sequencetable
DADA2
8 days ago by
Ali
• 0
2
votes
4
replies
311
views
SnpEff annotates coding duplication as intronic?
snpeff
8 days ago by
kirill.zaslavsky
• 0
0
votes
2
replies
242
views
Calculating percentage of cells proliferating in single cell rna seq data
statistics
scRNA-seq
proliferation
7 days ago by
mropri
▴ 150
5
votes
4
replies
2.8k
views
genefu for PAM50 prediction
RNA-Seq
breast cancer
subtyping
updated 8 days ago by
hamarillo
▴ 70 • written 5.7 years ago by
silviajserrano
▴ 50
3
votes
10
replies
598
views
Piping samtools to R
R
NGS
bash
samtools
8 days ago by
joe
▴ 510
2
votes
2
replies
240
views
How to filter columns in a raw sparse matrix in R
matrix
R
updated 8 days ago by
bk11
★ 2.3k • written 8 days ago by
bgbs
• 0
3
votes
7
replies
450
views
Integration of transcriptomics and proteomics: difficult matching names
rna-seq
tmt
nomenclature
proteomics
8 days ago by
ntsopoul
▴ 60
0
votes
0
replies
142
views
Input into WGCNA and Error on constructNetworks on RNA-Seq data - unique rownames
rownames
RNA-Seq
WGCNA
unique
8 days ago by
shasabhi1
• 0
0
votes
0
replies
132
views
How to summarize dbCAN3 results
dbCAN
CAZy
CAZyme
dbCAN3
dbCAN2
8 days ago by
Nishat
• 0
3
votes
3
replies
411
views
trouble using sequenceTubeMap in chromium installed on WSL
vg
8 days ago by
ayushm64
• 0
0
votes
0
replies
159
views
what exactly is a k-mer table (remora)?
remora
basecall
8 days ago by
anne
• 0
3
votes
6
replies
11k
views
List of species in RepeatMasker Tool (species parameter)
RepeatMasker
Masking
updated 8 days ago by
Bioinfotec
▴ 10 • written 7.6 years ago by
nut_B
▴ 10
1
vote
6
replies
410
views
Rename multiple fastq.gz files
fastq
next-gen
updated 8 days ago by
shenwei356
8.4k • written 8 days ago by
Jérémie
• 0
1
vote
1
reply
175
views
Help/Direction Needed for Data Analysis of RNA
Sequencing
RNA-seq
DNA-Seq
updated 8 days ago by
dsull
★ 5.8k • written 8 days ago by
niruf
• 0
0
votes
0
replies
186
views
Job:
Ensembl Outreach Project Leader
ebi
embl
genomics
ensembl
3 days ago by
Ben_Ensembl
★ 2.4k
3
votes
3
replies
285
views
Bwa sampe - BGI
Bwa-sampe
BGI
updated 8 days ago by
GenoMax
141k • written 8 days ago by
lorena9132
• 0
0
votes
0
replies
171
views
News:
Final Call - Bioinformatics Pipeline Development with Nextflow (May 27-29, 2024)
workshop
RNA-seq
nextflow
DNA-seq
updated 8 days ago by
Ram
43k • written 8 days ago by
David Langenberger
11k
0
votes
0
replies
141
views
GWAS Phenotypes
GWAS
8 days ago by
solomoncharles77
▴ 90
4
votes
2
replies
276
views
Forum:
Bioinformatics: Where do I start
Sequencing
updated 8 days ago by
Ram
43k • written 8 days ago by
Adi
▴ 10
0
votes
2
replies
313
views
GSEA analysis in R
GSEA
R
Arabidopsis
7 days ago by
Sudip
• 0
1
vote
2
replies
256
views
Visualization of PROKKA Annotation Result?
PROKKA
Annotation
updated 8 days ago by
Joe
21k • written 9 days ago by
ferdinand
▴ 10
0
votes
2
replies
367
views
Which experiments generate Position Frequency Matrix?
Position-Frequency-Matrix
7 days ago by
arriyaz.nstu
▴ 30
2
votes
2
replies
386
views
I am new to single cell analysis. Can RNA velocity (spliced/unspliced) be calculated solely from the raw file (count matrix) provided in the Suppleme…
GEO
velocity
count-matrix
updated 8 days ago by
Ram
43k • written 9 days ago by
Spring
• 0
0
votes
0
replies
122
views
Add geno header to VariantAnnotation objects
nichenet
scRNA-seq
9 days ago by
QX
• 0
5
votes
4
replies
305
views
I'm new to cell ranger. Can single cells prepared with a protocol other than the 10x genomics protocol not be processed with cell ranger?
cellranger
scRNA-seq
10x
9 days ago by
Spring
• 0
2
votes
5
replies
436
views
Where to find the homopolymer regions bed file for Hg002 genome?
simple-repeats
hg002
bed
homopolymer-regions
8 days ago by
Bikram Kumar
• 0
1
vote
1
reply
292
views
WGCNA network from Adjacency or TOM matrix
WGCNA
network
updated 9 days ago by
andres.firrincieli
3.6k • written 12 days ago by
Milly
• 0
0
votes
1
reply
214
views
Error in edgeR/Deseq2 Analysis
r
edger
updated 9 days ago by
ATpoint
82k • written 9 days ago by
Ravita
• 0
0
votes
2
replies
228
views
Getting marker genes for cell types
clustering
marker-genes
umap
9 days ago by
orzrzlyo
▴ 20
0
votes
1
reply
222
views
gene body coverage with RSeqQC
rna-seq
qc
updated 8 days ago by
BioinfGuru
★ 1.7k • written 9 days ago by
wiscoyogi
▴ 40
0
votes
2
replies
255
views
Statistical Advice Needed for RNAseq Data Analysis
Statistical-Significance
Genomics
RNA-seq
Data-Analysis
updated 8 days ago by
Ram
43k • written 9 days ago by
David
• 0
0
votes
1
reply
196
views
Using adonis to include a random effect
mixed-model
adonis
updated 9 days ago by
LChart
3.9k • written 9 days ago by
leranwangcs
▴ 120
1
vote
3
replies
436
views
how to get the variance explained by the independent variable from multivariate distance matrix regression model with random effect?
multivariate-distance-matrix
regression
updated 9 days ago by
LChart
3.9k • written 10 days ago by
leranwangcs
▴ 120
1
vote
2
replies
265
views
Can I compare kallisto counts from samples with different amount of reads?
RNA-seq
kallisto
8 days ago by
bioinfo
▴ 150
0
votes
1
reply
192
views
How to get the reference panel sites for TOPMed hg37 and 38
Imputation
updated 9 days ago by
bk11
★ 2.3k • written 9 days ago by
sinhas
• 0
1
vote
5
replies
367
views
Best way to deal with overlapping read names in merged BAM files
picard
MarkDuplicates
9 days ago by
shpak.max
▴ 50
0
votes
1
reply
208
views
merging Seurat objects after SCT
Seurat
SCT
updated 9 days ago by
Ram
43k • written 9 days ago by
michelle.swarovski
• 0
0
votes
1
reply
201
views
Two databases: Human Microbiome Project and MGnify
Microbiome
databases
updated 9 days ago by
GenoMax
141k • written 9 days ago by
haiying.kong
▴ 360
0
votes
2
replies
263
views
RNAseq 1 control 2 different treatment
RNA-seq
9 days ago by
matteo.levorato
• 0
1
vote
0
replies
142
views
Seeking Advice on Gene Ontology Analysis for Bulk RNA-Seq Data Without Control Samples
Gene-ontology
RNA-seq
R
updated 9 days ago by
Ram
43k • written 9 days ago by
Oscar
▴ 10
1
vote
2
replies
229
views
CombineGVCFs vs. MergeVcfs
CombineGVCFs
MergeVcfs
GATK
WGS
GVCF
updated 8 days ago by
Jeremy Leipzig
22k • written 9 days ago by
Sd
• 0
0
votes
0
replies
141
views
News:
Deadline Approaching: PETs for Public Health Challenge
privacy
public-health-challenge
updated 9 days ago by
Ram
43k • written 9 days ago by
polarise
▴ 380
0
votes
0
replies
152
views
How should I make kallisto indexes?
kallisto
updated 9 days ago by
GenoMax
141k • written 9 days ago by
bioinfo
▴ 150
2
votes
2
replies
218
views
Problem with Sniffles pipeline and SV calling help
SV
sniffles
StructuralVariant
updated 9 days ago by
GenoMax
141k • written 9 days ago by
njornet
▴ 20
6
votes
0
replies
189
views
Herald:
The Biostar Herald for Monday, April 15, 2024
herald
9 days ago by
Biostar
2.7k
1,000 results • Page
5 of 20
Recent Votes
Filtering rRNA contamination (indicated by GC content plots) from RNA-seq data
Filtering rRNA contamination (indicated by GC content plots) from RNA-seq data
A: What is the VEP Impact column?
is oxford nanopore technology data paired or single end sequencing?
is oxford nanopore technology data paired or single end sequencing?
Answer: is oxford nanopore technology data paired or single end sequencing?
Answer: Trying to wrap my head around Illumina paired end sequencing
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Assa Yeroslaviz
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Keem Uarren Eiryll
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Centurion
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Recent Replies
Comment: Highest variable features in single cell data
by
Kazo
• 0
I apologize for the confusion. What I meant to say is that, for example, the Trbv17 gene appears among the variable genes. However, when I …
Answer: why renaming Idents in Seurat object doesn't work?
by
Assa Yeroslaviz
★ 1.8k
I manage to find a workwround, but I don't understand what I did wrong here. my solution was to extract the cluster column as vector and…
Answer: Finding orthologs between genome error
by
Adrian Altenhoff
★ 1.1k
Hi, thanks for letting us know. In a recent software update, we introduced a problem with the written splice information in the cached …
Comment: Fetch table from clinvar database according to a list of rsid
by
ashaneev07
▴ 20
so which one should i prefer? i don't need the entire results i need the condition-Germline table only. (for eg:-from, https://www.ncbi.nlm…
Comment: To get p-values for the TPM
by
dsull
★ 5.8k
OK, not sure why your intention is to use RSEM p-values for, but at least tell us the commands you ran then otherwise how are we supposed t…
Comment: Fetch table from clinvar database according to a list of rsid
by
Pierre Lindenbaum
161k
> Don't forget to follow up on your threads. If an answer was helpful, you should upvote it; if the answer resolved your question, you shou…
Comment: different FeatureCounts output for the same data
by
sehriban.buyukkilic
▴ 10
Sure, I'll inquire about the version of Rsubread. I'll keep you posted if it works :) Thanks
Comment: different FeatureCounts output for the same data
by
sehriban.buyukkilic
▴ 10
Yeah, let me show you my featureCounts result, it looks like this. It's too low. [1]: /media/images/eb8293fe-e6ae-4b02-92e2-0ba2075b
Comment: Adding CB tag to bam file
by
Pierre Lindenbaum
161k
samtools addreplacerg is for read groups. This is not what OP asked.
Comment: Adding CB tag to bam file
by
Maria
• 0
When I try ``` samtools addreplacerg -r "@CB\tID:$cell" -o $cell.bam $LINE``` the CB tag gets add to the header, but the tag in every line …
Answer: Figures are disappeared from html report of SnpEff
by
Pierre Lindenbaum
161k
the remote website providing the javascript or/and the images is down or you're now behind a proxy. Check the firefox console: https://fire…
Comment: Fetch table from clinvar database according to a list of rsid
by
Pierre Lindenbaum
161k
ah ! and your code doesn't work because clinvar ID is not a rs-ID.
Answer: Fetch table from clinvar database according to a list of rsid
by
Pierre Lindenbaum
161k
$ cat input.rs rs11203366 rs11203367 rs874881 rs776453694 rs80324279 rs324420 rs112766203 wget -…
Comment: Highest variable features in single cell data
by
ATpoint
82k
> and these cells are not even in a single cluster. What does this mean? If you run clustering on all cells then every cell is assigned t…
Comment: Is it possible to get a list of representative genomes from a past RefSeq releas
by
Bertalan_Takacs
▴ 90
Yes, I can tell that, but as far as I see it doesn't contain any other information about the genomes, such as if they were representative i…
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