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1,000 results • Page
4 of 20
Sort: Rank
Rank
Views
Votes
Replies
3
votes
7
replies
434
views
Integration of transcriptomics and proteomics: difficult matching names
rna-seq
tmt
nomenclature
proteomics
6 days ago by
ntsopoul
▴ 60
0
votes
0
replies
137
views
Input into WGCNA and Error on constructNetworks on RNA-Seq data - unique rownames
rownames
RNA-Seq
WGCNA
unique
6 days ago by
shasabhi1
• 0
0
votes
0
replies
126
views
How to summarize dbCAN3 results
dbCAN
CAZy
CAZyme
dbCAN3
dbCAN2
6 days ago by
Nishat
• 0
3
votes
3
replies
402
views
trouble using sequenceTubeMap in chromium installed on WSL
vg
6 days ago by
ayushm64
• 0
0
votes
0
replies
148
views
what exactly is a k-mer table (remora)?
remora
basecall
6 days ago by
anne
• 0
3
votes
6
replies
10k
views
List of species in RepeatMasker Tool (species parameter)
RepeatMasker
Masking
updated 6 days ago by
Bioinfotec
▴ 10 • written 7.5 years ago by
nut_B
▴ 10
1
vote
6
replies
390
views
Rename multiple fastq.gz files
fastq
next-gen
updated 6 days ago by
shenwei356
8.4k • written 6 days ago by
Jérémie
• 0
1
vote
1
reply
169
views
Help/Direction Needed for Data Analysis of RNA
Sequencing
RNA-seq
DNA-Seq
updated 6 days ago by
dsull
★ 5.8k • written 6 days ago by
niruf
• 0
0
votes
0
replies
173
views
Job:
Ensembl Outreach Project Leader
ebi
embl
genomics
ensembl
20 hours ago by
Ben_Ensembl
★ 2.4k
2
votes
3
replies
266
views
Bwa sampe - BGI
Bwa-sampe
BGI
updated 6 days ago by
GenoMax
141k • written 6 days ago by
lorena9132
• 0
0
votes
0
replies
165
views
News:
Final Call - Bioinformatics Pipeline Development with Nextflow (May 27-29, 2024)
workshop
RNA-seq
nextflow
DNA-seq
updated 6 days ago by
Ram
43k • written 6 days ago by
David Langenberger
11k
0
votes
0
replies
134
views
GWAS Phenotypes
GWAS
6 days ago by
solomoncharles77
▴ 90
4
votes
2
replies
266
views
Forum:
Bioinformatics: Where do I start
Sequencing
updated 6 days ago by
Ram
43k • written 6 days ago by
Adi
▴ 10
0
votes
2
replies
296
views
GSEA analysis in R
GSEA
R
Arabidopsis
4 days ago by
Sudip
• 0
1
vote
2
replies
247
views
Visualization of PROKKA Annotation Result?
PROKKA
Annotation
updated 6 days ago by
Joe
21k • written 7 days ago by
ferdinand
▴ 10
0
votes
2
replies
360
views
Which experiments generate Position Frequency Matrix?
Position-Frequency-Matrix
5 days ago by
arriyaz.nstu
▴ 30
2
votes
2
replies
378
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 6 days ago by
Ram
43k • written 6 days ago by
Spring
• 0
0
votes
0
replies
118
views
Add geno header to VariantAnnotation objects
nichenet
scRNA-seq
6 days ago by
QX
• 0
5
votes
4
replies
290
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
6 days ago by
Spring
• 0
2
votes
5
replies
415
views
Where to find the homopolymer regions bed file for Hg002 genome?
simple-repeats
hg002
bed
homopolymer-regions
6 days ago by
Bikram Kumar
• 0
1
vote
1
reply
286
views
WGCNA network from Adjacency or TOM matrix
WGCNA
network
updated 6 days ago by
andres.firrincieli
3.6k • written 10 days ago by
Milly
• 0
0
votes
1
reply
209
views
Error in edgeR/Deseq2 Analysis
r
edger
updated 6 days ago by
ATpoint
81k • written 7 days ago by
Ravita
• 0
0
votes
2
replies
221
views
Getting marker genes for cell types
clustering
marker-genes
umap
7 days ago by
orzrzlyo
▴ 20
0
votes
1
reply
215
views
gene body coverage with RSeqQC
rna-seq
qc
updated 6 days ago by
BioinfGuru
★ 1.7k • written 7 days ago by
wiscoyogi
▴ 40
0
votes
2
replies
249
views
Statistical Advice Needed for RNAseq Data Analysis
Statistical-Significance
Genomics
RNA-seq
Data-Analysis
updated 6 days ago by
Ram
43k • written 7 days ago by
David
• 0
0
votes
1
reply
186
views
Using adonis to include a random effect
mixed-model
adonis
updated 7 days ago by
LChart
3.9k • written 7 days ago by
leranwangcs
▴ 120
1
vote
3
replies
423
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 7 days ago by
LChart
3.9k • written 8 days ago by
leranwangcs
▴ 120
1
vote
2
replies
257
views
Can I compare kallisto counts from samples with different amount of reads?
RNA-seq
kallisto
6 days ago by
bioinfo
▴ 150
0
votes
1
reply
184
views
How to get the reference panel sites for TOPMed hg37 and 38
Imputation
updated 7 days ago by
bk11
★ 2.3k • written 7 days ago by
sinhas
• 0
1
vote
5
replies
352
views
Best way to deal with overlapping read names in merged BAM files
picard
MarkDuplicates
7 days ago by
shpak.max
▴ 50
0
votes
1
reply
199
views
merging Seurat objects after SCT
Seurat
SCT
updated 7 days ago by
Ram
43k • written 7 days ago by
michelle.swarovski
• 0
0
votes
1
reply
190
views
Two databases: Human Microbiome Project and MGnify
Microbiome
databases
updated 7 days ago by
GenoMax
141k • written 7 days ago by
haiying.kong
▴ 360
0
votes
2
replies
255
views
RNAseq 1 control 2 different treatment
RNA-seq
6 days ago by
matteo.levorato
• 0
1
vote
0
replies
136
views
Seeking Advice on Gene Ontology Analysis for Bulk RNA-Seq Data Without Control Samples
Gene-ontology
RNA-seq
R
updated 7 days ago by
Ram
43k • written 7 days ago by
Oscar
▴ 10
1
vote
2
replies
223
views
CombineGVCFs vs. MergeVcfs
CombineGVCFs
MergeVcfs
GATK
WGS
GVCF
updated 6 days ago by
Jeremy Leipzig
22k • written 7 days ago by
Sd
• 0
0
votes
0
replies
136
views
News:
Deadline Approaching: PETs for Public Health Challenge
privacy
public-health-challenge
updated 7 days ago by
Ram
43k • written 7 days ago by
polarise
▴ 380
0
votes
0
replies
143
views
How should I make kallisto indexes?
kallisto
updated 7 days ago by
GenoMax
141k • written 7 days ago by
bioinfo
▴ 150
2
votes
2
replies
210
views
Problem with Sniffles pipeline and SV calling help
SV
sniffles
StructuralVariant
updated 7 days ago by
GenoMax
141k • written 7 days ago by
njornet
▴ 20
4
votes
0
replies
183
views
Herald:
The Biostar Herald for Monday, April 15, 2024
herald
7 days ago by
Biostar
2.6k
2
votes
1
reply
225
views
Trouble understanding seemingly contradicting results of GSE analysis (contradicting enriched GO terms with similar negative NES scores)
GSEA
pathways
GO-terms
updated 7 days ago by
i.sudbery
19k • written 8 days ago by
Manko47
• 0
4
votes
6
replies
430
views
Odd results with BLAST remote
blast
remote
NCBI
updated 6 days ago by
b.contreras.moreira
▴ 170 • written 7 days ago by
Begonia_pavonina
▴ 150
6
votes
8
replies
521
views
BRAKER3 genome annotation
annotation
BRAKER3
genome
updated 5 days ago by
dariober
14k • written 8 days ago by
manaswiniparija3
▴ 40
2
votes
0
replies
198
views
What are good Python models/packages to predict small molecula (SMILES) binding to proteins ?
SMILES
7 days ago by
Alexander
▴ 220
1
vote
1
reply
172
views
Do I need to go back and filter my long-reads?
alignment
nanopore
filtering
QC
ONT
updated 7 days ago by
GenoMax
141k • written 7 days ago by
eesiribloom
▴ 80
0
votes
0
replies
132
views
Automated internal stop codon checker
ORF
stopcodon
internal
virus
7 days ago by
Balazs Horvath
▴ 10
0
votes
0
replies
138
views
Repeat expansion identification tools for long-read data
fragilex
repeatexpansion
long-read
fmr1
7 days ago by
adarsh_pp
▴ 40
2
votes
4
replies
357
views
Which command ro run MAKER pipeline for gene annotation ?
run.
command
to
MAKERpipeline.
updated 7 days ago by
GenoMax
141k • written 8 days ago by
Sony
▴ 10
0
votes
0
replies
147
views
FreeBayes detection capacity
reads
freebayes
long
7 days ago by
quentinperriere
• 0
0
votes
2
replies
228
views
VCF annotation with gnomADv4 using R package
annotation
gnomADv4
R
VCF
5 days ago by
DKA
▴ 40
0
votes
2
replies
250
views
How to identify gaps in a genome?
awk
seqkit
assembly
fasta
genome
7 days ago by
rj.rezwan
• 0
1,000 results • Page
4 of 20
Recent Votes
Comment: Correlation for ATAC-Seq and Chip-Seq
Answer: PDB residue serial inconsistency and PDB id&UniProt ID mismatch
Answer: PDB residue serial inconsistency and PDB id&UniProt ID mismatch
Answer: PDB residue serial inconsistency and PDB id&UniProt ID mismatch
Answer: PDB residue serial inconsistency and PDB id&UniProt ID mismatch
Comment: PDB residue serial inconsistency and PDB id&UniProt ID mismatch
Answer: What is the real meaning of relative enrichment/peak height of ChIP-seq tracks?
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Recent Replies
Comment: Redirection of Duplicate PMIDs
by
LauferVA
4.2k
let me know the scope and scale of the request (e.g. I need to do this for every record in Pubmed) and can help
Comment: Redirection of Duplicate PMIDs
by
LauferVA
4.2k
how is this query itself originating?
Comment: Redirection of Duplicate PMIDs
by
dominickd
• 0
I was able to come up with a workaround using the requests library: import requests pmid = 30134295 url = 'https://pubmed.ncbi…
Comment: What is the real meaning of relative enrichment/peak height of ChIP-seq tracks?
by
HyperEvo
• 0
Thanks for you answer! Actually I have already filtered my peak according to blacklist by bedtools. You mean it's meaningless to compare on…
Answer: Redirection of Duplicate PMIDs
by
GenoMax
141k
More than likely not since the database query seems to work for the redirected PMID but not the original. $ esearch -db pubmed -query …
Comment: DYH17 Structure Prediction
by
anasjamshed
▴ 120
Blast showed PDB: 8J07_n9(human) as best template with 62.99%. I also used swissmodel to model the protein and it showed: https://swissmod…
Comment: How to slice a gvcf file with tabix?
by
Pierre Lindenbaum
161k
No, in haplotypecaller
Comment: How to slice a gvcf file with tabix?
by
Sd
• 0
Then what is the best way to do slicing for 1Mb windows? Doing `--intervals` in the GenomicsDBImport?
Comment: How to slice a gvcf file with tabix?
by
Pierre Lindenbaum
161k
> What is your suggestion to run GenomicsDBImport efficiently? call the GVCF by slices eg: chr1:1000000-2000000<br> run GenomicsDBImport …
Comment: How to slice a gvcf file with tabix?
by
Sd
• 0
I want to run gatk `GenomicsDBImport` tool to build a GenomicsDB. I want to slice it to reduce the computation time since I have 1300 gvcf …
Comment: Problem to remove subset of patients with plink
by
chrchang523
10k
The first step has to be taken outside of PLINK here. E.g. append "_1" and "_2" to the duplicated IDs in the .ped or .fam file, then menti…
Comment: Error in cnetplot enrichplot package
by
Ram
43k
Show us the exact call to `cnetplot()` with a sample of all input parameters. Did you compare notes with your friend?
Comment: How to slice a gvcf file with tabix?
by
Pierre Lindenbaum
161k
why would you need to slice a gvcf file ? all the tools in gatk can use a BED / interval / chromosome to narrow the analysis
Comment: Error in cnetplot enrichplot package
by
Farhad
• 0
I check dataframe it has more than 2 columns
Comment: Error in cnetplot enrichplot package
by
Farhad
• 0
We write it to csv and then send it via email
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