Latest
Open
Jobs
Tutorials
Tags
About
FAQ
Community
Planet
New Post
Log In
New Post
Latest
Open
News
Jobs
Tutorials
Forum
Tags
Planet
Users
Log In
Sign Up
About
Limit : all time
all time
today
this week
this month
this year
121,155 results • Page
1 of 2424
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
16
views
Basecount calculation after alignment to multi-fasta file
multi-fasta
sequence
bwa
consensus
samtool
alignment
1 hour ago by
aj
• 0
0
votes
0
replies
30
views
TEtranscripts analysis
TEtranscripts
2 hours ago by
frarodmar17
• 0
0
votes
0
replies
36
views
CVNkit call commande
CVNs
CNVKit
Somatic_variant
updated 3 hours ago by
lieven.sterck
15k • written 4 hours ago by
AIMAR
• 0
0
votes
0
replies
38
views
FraserDataSet() error in FRASER
R
splicing
FRASER
RNAseq
alternative
5 hours ago by
n_navy
• 0
0
votes
0
replies
60
views
Strange volcano - DEGs with p.adj=0 look weird
RNA-seq
DEGs
updated 5 hours ago by
ATpoint
88k • written 5 hours ago by
noodlejackson
▴ 40
837
votes
170
replies
176k
views
112 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 14 days ago by
Biostar
3.5k • written 8.4 years ago by
Istvan Albert
102k
2
votes
3
replies
356
views
What is the difference between JASPAR IDs MA0668.3 and MA1993.2 for Neurod2?
motifs
atac-seq
factor
jaspar
transcription
updated 5 hours ago by
GenoMax
151k • written 10 days ago by
Ambuj
• 0
0
votes
0
replies
51
views
News:
Online course: Introduction to R and Bioconductor
R
Bioconductor
Genomics
7 hours ago by
Physalia-courses
★ 2.6k
0
votes
0
replies
51
views
Umbrella pathways in KEGG
KEGG
R
7 hours ago by
Arindam Ghosh
▴ 540
0
votes
0
replies
53
views
IM-fusion data analysis
IM-fusion
7 hours ago by
frarodmar17
• 0
0
votes
1
reply
72
views
error in reading codelink data
readcodelinkset
error
updated 3 hours ago by
marco.barr
▴ 170 • written 8 hours ago by
nazaninhoseinkhan
▴ 530
0
votes
1
reply
114
views
DiffBind analysis with ENCODE data using R and .bed/.bam files
R
ChIP-seq
ENCODE
Diffbind
updated 10 hours ago by
Aspire
▴ 380 • written 16 hours ago by
stalo.lili
• 0
7
votes
5
replies
566
views
No variant in the Pseudoautosomal regions of gomad chrY ?
chrY
PAR
vcf
gnomad
Pseudoautosomal
updated 12 hours ago by
cmdcolin
★ 4.2k • written 15 days ago by
Pierre Lindenbaum
166k
7
votes
6
replies
3.2k
views
News:
Boston Ma Us Area Folks: Software Carpentry Workshop For Women In Science Coming Up
python
training
updated 5 hours ago by
GenoMax
151k • written 12.1 years ago by
Mary
11k
0
votes
1
reply
187
views
Selecting clinical rows for repeated case IDs in TCGA-BRCA data
Clinical-Data
Breast-Cancer
TCGA
updated 20 hours ago by
Zhenyu Zhang
★ 1.3k • written 2 days ago by
BhagyashreeWaghale
• 0
0
votes
2
replies
207
views
Kallisto to tximport to deseq2
enseml
deseq2
Kallisto
updated 1 day ago by
GenoMax
151k • written 1 day ago by
bioinfo
▴ 150
0
votes
1
reply
186
views
Pooling Replicates in Omics Analysis: Trade-off Between Cost and Data Robustness?
Replicates
Omics
Pooling
updated 1 day ago by
ATpoint
88k • written 2 days ago by
sardius
• 0
0
votes
0
replies
117
views
Tool for Estimation of Purity and Ploidy in Precancerous Lesions
CNV
purity
genome
ploidy
2 days ago by
ting
• 0
9
votes
8
replies
618
views
6 follow
Nextflow: split a FASTA file into 5 parts to enable parallel processing
nextflow
workflow
pipeline
2 days ago by
neng
▴ 40
0
votes
1
reply
174
views
What to choose as background in statistic test genetics
test
expression
gene
statistic
updated 1 day ago by
Dunois
★ 2.9k • written 2 days ago by
adigershon8897
• 0
4
votes
4
replies
389
views
differential exon usage from Salmon outputs
edgeR
diffSpliceDGE
DEU
salmon
updated 2 days ago by
Gordon Smyth
★ 8.0k • written 5 days ago by
n_navy
• 0
0
votes
0
replies
128
views
Multi-SNP Behavioral and Frequency Profile Inquiry: TPH2, GRM2, COMT, DRD2, HTR1A (Rare Interaction)
population-genetics
genetic-variation
epistasis
snp
gnomad
2 days ago by
SonicSoal
• 0
0
votes
0
replies
130
views
Rare variants association analysis (using WGS)
variant
GWAS
rare
WGS
2 days ago by
SeoG
• 0
0
votes
0
replies
142
views
Convert AnnData to Seurat (spatial transcriptomics, visium HD)
seurat
segmentation
anndata
visiumhd
updated 2 days ago by
GenoMax
151k • written 2 days ago by
npont
• 0
0
votes
0
replies
147
views
News:
Online course -Reproducibility in Bioinformatics - July 7–9
Singularity
Git
Docker
Snakemake
Nextflow
3 days ago by
Physalia-courses
★ 2.6k
1
vote
5
replies
411
views
RNA-Sequencing Analysis when control samples paired-end and tumour samples single-end
ENA
rna-sequencing
3 days ago by
h
• 0
0
votes
3
replies
300
views
STAR aligner - how is quality and correctness tested across builds/releases?
STAR
updated 3 days ago by
GenoMax
151k • written 3 days ago by
Arthur
• 0
1
vote
2
replies
288
views
Pathway enrichment analysis on time-series data by filtering out age comparisons
pea
go
rnaseq
time-series
3 days ago by
fullycratered
• 0
4
votes
5
replies
371
views
building snpeff database for plant
plant
updated 7 hours ago by
lieven.sterck
15k • written 3 days ago by
analyst
▴ 60
1
vote
1
reply
204
views
How to find motif in specific region
motif
chip-seq
updated 3 days ago by
Alex Reynolds
36k • written 3 days ago by
zhang616123
• 0
0
votes
0
replies
185
views
How to interpret perplexing qcovhsp result in blastx
blastx
qcovhsp
blastn
2 days ago by
samuel.himes
• 0
0
votes
0
replies
161
views
Representation of GT:DS INFO tag for a missing marker in a VCF file
VCF
bcftools
3 days ago by
Mwangana
• 0
0
votes
0
replies
171
views
Best Practices for Integrating RNA-seq Time Series from Multiple Studies with Varying Protocols
differential-expression
meta-analysis
integration
RNA-seq
time-series
4 days ago by
enee
▴ 20
10
votes
9
replies
4.9k
views
bcftools query add header
bcftools
updated 4 days ago by
GenoMax
151k • written 3.1 years ago by
User000
▴ 750
0
votes
2
replies
338
views
Alternative to PASApipeline
transcriptomics
annotation
updated 3 days ago by
colindaven
7.4k • written 5 days ago by
lagartija
▴ 160
0
votes
0
replies
176
views
How to Get a Genetic Map, Given the Physical Position and Genotype Data of Markers
genetic-map
updated 3 days ago by
Ram
45k • written 4 days ago by
Daniyal
• 0
1
vote
7
replies
2.5k
views
vcftools --weir-fst-pop returns -nan
fst
vcftools
updated 4 days ago by
Michael
55k • written 2.4 years ago by
elizabeth
• 0
1
vote
3
replies
308
views
HISAT2 with Cleaned Data
HISAT2
RNASeq
updated 7 hours ago by
lieven.sterck
15k • written 4 days ago by
Gordonz9494
▴ 10
2
votes
1
reply
256
views
Definitions for "differential expression" and "differential abundance" in RNA-seq?
rna-seq
deseq
abundance
differential-expression
updated 3 days ago by
Ram
45k • written 4 days ago by
tw_140
• 0
2
votes
5
replies
401
views
Efficiently find regions in bed file that are within start and end regions of another bed file.
intersect
bedtools
updated 3 days ago by
Alex Reynolds
36k • written 4 days ago by
rxs1018
• 0
2
votes
4
replies
336
views
16S Libraries With Non-Purified Short Fragments
Sequencing
16S
Libraries
Magnetic
Beads
4 days ago by
alenew.am
▴ 10
0
votes
1
reply
259
views
How to map polyA tails to barcodes in paired end reads for single cell RNA-seq
RNA-seq
cell
polyA
single
updated 5 days ago by
GenoMax
151k • written 5 days ago by
Ana
▴ 10
7
votes
6
replies
4.9k
views
Questions related to ChromHMM+using MACS2 peak calling output bed file as input for ChromHMM?
macs2
ChIP-Seq
ChromHMM
MACS2
CHROMHMM
updated 5 days ago by
luminea
▴ 10 • written 5.9 years ago by
m.sadman.sakib
▴ 120
4
votes
5
replies
507
views
Editing and Adding to a GTF file
Annotation
Gene-ID
GTF
updated 3 days ago by
Ram
45k • written 6 days ago by
Keem Uarren Eiryll
▴ 10
4
votes
2
replies
279
views
Averaging multiple IgG BAM files for use as a control in ChromHMM
ChromHMM
bam
averag
updated 5 days ago by
ATpoint
88k • written 5 days ago by
luminea
▴ 10
3
votes
3
replies
487
views
Deduplication rate of shotgun metagenomes using fastqc
metagenome
fastqc
shotgun
deduplication
updated 5 days ago by
colindaven
7.4k • written 10 days ago by
vikasmh111
• 0
0
votes
0
replies
196
views
News:
online course: Introduction to Genome Annotation
Gene-Prediction
Genome-Annotation
Gene-Models
5 days ago by
Physalia-courses
★ 2.6k
0
votes
2
replies
1.3k
views
ValueError: Found array with 0 sample(s) (shape=(0, 138)) while a minimum of 1 is required. In metawrap - concoct binning module
concoct
metawrap
module
5 days ago by
shevch2009
• 0
2
votes
7
replies
489
views
Circular heatmap using circos.heatmap in R
R
circos
heatmap
circularheatmap
updated 4 days ago by
GenoMax
151k • written 5 days ago by
Yukta
• 0
0
votes
0
replies
223
views
Zebrafish phenotype ontology enrichment analyses
ontology
zebrafish
5 days ago by
Li
• 0
121,155 results • Page
1 of 2424
Recent Votes
Answer: differential exon usage from Salmon outputs
Answer: Covariates didn't change GWAS too much?
Covariates didn't change GWAS too much?
How to make 4-column annotation file
Answer: How to make 4-column annotation file
Answer: Why is this interaction result not significant in DESeq2
P-values far too high for quantitative regenie phenotype
Recent Locations •
All
Bangkok,
1 minute ago
United States,
2 minutes ago
Morocco,
3 minutes ago
Germany,
4 minutes ago
China,
6 minutes ago
United States,
7 minutes ago
Stony Brook University, NY,
7 minutes ago
Recent Awards •
All
Popular Question
to
Pallondyle
• 0
Popular Question
to
adarsh
▴ 60
Popular Question
to
noodlejackson
▴ 40
Scholar
to
neng
▴ 40
Popular Question
to
nazaninhoseinkhan
▴ 530
Popular Question
to
Rox
★ 1.4k
Popular Question
to
Yugan Gogul Muthukumar
▴ 10
Recent Replies
Comment: error in reading codelink data
by
marco.barr
▴ 170
Hi, are the files exported with the same version of Codelink? It seems that one of your files might not have the expected header containing…
Comment: Boston Ma Us Area Folks: Software Carpentry Workshop For Women In Science Coming
by
GenoMax
151k
This post is from 12 years ago. Current site (and upcoming workshops) can be found here: https://software-carpentry.org/
Comment: What is the difference between JASPAR IDs MA0668.3 and MA1993.2 for Neurod2?
by
GenoMax
151k
Thanks for posting the follow-up.
Comment: Highly inflated p-values in GWAS by regenie
by
zx8754
12k
Did you manage to resolve this?
Answer: What is the difference between JASPAR IDs MA0668.3 and MA1993.2 for Neurod2?
by
Ambuj
• 0
Update from JASPAR's google group can be followed [here][1] [1]: https://groups.google.com/d/msgid/jaspar/caae4e89-0876-4075-b67c-88…
Comment: HISAT2 with Cleaned Data
by
lieven.sterck
15k
OK, good to hear on the command syntax (and HPC requests) ! I see, best would be to contact the company and ask for the details of their m…
Comment: building snpeff database for plant
by
lieven.sterck
15k
That certainly is an option indeed. What those checks will do is to check if the sequence they derive from parsing the GTF/GFF file is comp…
Answer: DiffBind analysis with ENCODE data using R and .bed/.bam files
by
Aspire
▴ 380
> most examples assume FASTQ-level input Perhaps the reason for this impression is looking in ENCODE pipelines&workflows. But take a look…
Answer: No variant in the Pseudoautosomal regions of gomad chrY ?
by
cmdcolin
★ 4.2k
On the UCSC hg19 genome, the PAR regions on Y are actually exact copies of X This is described here ``` The Y chromosome in this assembl…
Comment: Boston Ma Us Area Folks: Software Carpentry Workshop For Women In Science Coming
by
Yue
• 0
i would like to attend, but the website is NOT FOUND
Answer: Selecting clinical rows for repeated case IDs in TCGA-BRCA data
by
Zhenyu Zhang
★ 1.3k
I assume you downloaded the data from GDC. First, GDC has a very helpful help desk support@nci-gdc.datacommons.io you can ask. Secondly, I …
Comment: Kallisto to tximport to deseq2
by
bioinfo
▴ 150
Thank you so much for replying. Would you do the paste instead of tximport? When I use biomart I specify the version I want to use to make …
Answer: Kallisto to tximport to deseq2
by
ATpoint
88k
I would always do either gene_id or `paste(gene_id, gene_name, sep = "_")` because gene_name has duplicates, which can cause conflicts. Gen…
Answer: Pooling Replicates in Omics Analysis: Trade-off Between Cost and Data Robustness
by
ATpoint
88k
Without further details I would recommend against doing unreplicated experiments as replication is key for any meaningful pairwise statisti…
Comment: What to choose as background in statistic test genetics
by
Dunois
★ 2.9k
The background should be the set of all genes that are common to both tissues. The foreground is the set of "significant" genes (e.g., base…
Traffic: 2632 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6