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
116,844 results • Page
1 of 2337
Sort: Rank
Rank
Views
Votes
Replies
0
votes
3
replies
419
views
JASPAR2024_getMatrixSet error
JASPAR2024
getMatrixSet
updated just now by
Ram
43k • written 11 weeks ago by
maplewj
▴ 10
0
votes
3
replies
49
views
How to convert normalized BigWig file to count matrix?
count-matrix
BigWig
updated just now by
Ram
43k • written 1 hour ago by
feather-W
• 0
0
votes
3
replies
133
views
bcftools - reducing to "sites-only"?
sites-only
bcftools
updated 1 hour ago by
Pierre Lindenbaum
161k • written 15 hours ago by
Matthew
• 0
3
votes
4
replies
2.9k
views
Have you ever obtained user guide of ExomeCNV?
CNV
updated 4.4 years ago by
lffu_0032
▴ 90 • written 5.2 years ago by
oghzzang
▴ 50
0
votes
0
replies
20
views
input file for alternative splicing in rmats in linux
input
file
2 hours ago by
Lambodarswain316
• 0
0
votes
2
replies
99
views
Server or aws cloud- which one is better for gatk pipeline
aws
server
calling
gatk
cloud
updated 3 hours ago by
Michael
54k • written 9 hours ago by
ashaneev07
▴ 20
1
vote
1
reply
354
views
ComBat_Seq stuck adjusting the data
Batch-Effect
RNAseq
ComBat-Seq
updated 3 hours ago by
Jaïr
• 0 • written 4 months ago by
NorbertK
▴ 10
795
votes
167
replies
143k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 3 months ago by
Biostar
2.7k • written 7.4 years ago by
Istvan Albert
100k
4
votes
3
replies
400
views
How to solve the error 'ERROR::MATE_NOT_FOUND:Found xxx unpaired mates' when run SamToFastq
samtofasq
picard
validatesamfile
updated 3 hours ago by
Pierre Lindenbaum
161k • written 5 hours ago by
Lila M
★ 1.2k
1
vote
3
replies
98
views
Nextflow: how to get the process work dir, within the process
nextflow
updated 3 hours ago by
Pierre Lindenbaum
161k • written 4 hours ago by
ScottDansk
▴ 10
1
vote
0
replies
55
views
What is Deepvariant default filtering values ?
vcf
calling
filter
variant
deepvariant
5 hours ago by
Shae
▴ 10
0
votes
1
reply
117
views
Enhanced Volcano-Cut off
foldchange
enhancedvolcano
updated 6 hours ago by
marco.barr
▴ 100 • written 16 hours ago by
odi
▴ 10
1
vote
4
replies
158
views
Importing a fastq file
Fastq
7 hours ago by
oumo
• 0
0
votes
6
replies
2.0k
views
Copy number Variation analysis using conumee
R
software error
sequencing
genome
updated 3 hours ago by
GenoMax
142k • written 3.2 years ago by
gs000095
▴ 10
1
vote
1
reply
84
views
Conda severely broken after attempting mamba install
biopython
conda
mamba
pycosat
updated 7 hours ago by
andres.firrincieli
3.6k • written 8 hours ago by
kacollier
▴ 30
1
vote
2
replies
1.4k
views
Seurat CellCycleScoring – confused about the proper order of operations when using SCTransform
CellCycleScoring
SCTransform
Seurat
updated 10 hours ago by
Li
• 0 • written 2.3 years ago by
GPM
▴ 10
0
votes
0
replies
60
views
Summary Statistics SNPs not found in Target data
SNP
plink
PRS
updated 11 hours ago by
Ram
43k • written 12 hours ago by
curious_butterfly
• 0
0
votes
0
replies
69
views
Long reads and fixing of mate-pair issues/marking duplicates with samtools
mate-pair
samtools
alignment
5 hours ago by
Zeng Hao
▴ 40
0
votes
1
reply
110
views
Contig assembly task, errors
genetics
contig
assembly
dna
bioinformatics
updated 12 hours ago by
GenoMax
142k • written 14 hours ago by
rackbersingh
• 0
1
vote
1
reply
106
views
Help with Biopython for Beginner
Python
ORF
FASTA
Biopython
updated 11 hours ago by
Ram
43k • written 16 hours ago by
cput
• 0
0
votes
0
replies
76
views
Annotate VCF via VEP for gnomAD annotation considering FILTER column
vep
vcf
gnomad
16 hours ago by
asalimih
▴ 60
0
votes
4
replies
304
views
Filtering Multi-sample VCF file for all except one Genotype
variant
SNP
VCF
18 hours ago by
schmince
• 0
0
votes
2
replies
185
views
featureCounts output summary assigned value higher than uniquely mapped reads from HISAT2
RNA-seq
featureCounts
HISAT
updated 4 hours ago by
i.sudbery
19k • written 18 hours ago by
Prawesh
• 0
0
votes
9
replies
1.5k
views
kinannote software installation problems
kinannote
updated 18 hours ago by
Emanoelle
• 0 • written 5.7 years ago by
Elizabeth
▴ 30
0
votes
1
reply
129
views
Obtaining Infinium Methylation450K manifest for hg38
TCGA
hg38
methylation
Illumina
updated 18 hours ago by
marco.barr
▴ 100 • written 21 hours ago by
elisheva
▴ 120
0
votes
0
replies
68
views
Pathway analysis of Bacteria from denovo genome assembly
KEGG-KASS
WGS
Pathway
denovo
updated 17 hours ago by
Ram
43k • written 21 hours ago by
mathavanbioinfo
▴ 90
0
votes
1
reply
218
views
Seurat V5 integration
Seurat
integration
updated 17 hours ago by
Ram
43k • written 4 days ago by
starswillfade
▴ 10
0
votes
2
replies
177
views
Error in plotting PCA plot in seurat
PCA
single-cell
seurat
scRNA
RNA
updated 17 hours ago by
Ram
43k • written 1 day ago by
Sumeet
• 0
0
votes
0
replies
85
views
News:
Online course: Introduction to Deep Learning
Python
Deep-Learning
Convolutional-Neural-Network
Machine-Learning
updated 17 hours ago by
Ram
43k • written 22 hours ago by
carlopecoraro2
★ 2.5k
4
votes
5
replies
3.4k
views
How to compare compare two Sam files to check mapping
alignment
updated 23 hours ago by
DavidStreid
▴ 90 • written 6.4 years ago by
madhu.9124
▴ 60
0
votes
2
replies
122
views
How/where can I get fungal mitogenome data for analysis?
fungal
mitogenome
updated 23 hours ago by
GenoMax
142k • written 23 hours ago by
madders73
• 0
4
votes
2
replies
219
views
How can I analyze normalized expression data?
DEseq2
RNA-seq
12 hours ago by
mnx0723
• 0
3
votes
4
replies
4.0k
views
FarmCPU - how to explain the reported 'effect'?
gwas
updated 1 day ago by
chloek88
• 0 • written 5.5 years ago by
Philipp Bayer
8.4k
0
votes
3
replies
220
views
RNA seq analysis
DESeq
RNA-seq
updated 18 hours ago by
Ram
43k • written 1 day ago by
prifa
• 0
10
votes
3
replies
265
views
TFs and Gene databases
Transcription-factor
Target
Regulatory-Networks
updated 1 day ago by
b.contreras.moreira
▴ 180 • written 1 day ago by
ijarne
• 0
0
votes
0
replies
114
views
Chance for trained without experience
bio
updated 1 day ago by
ATpoint
82k • written 1 day ago by
shehab
• 0
1
vote
2
replies
155
views
How do I change the title font size in ViolinPlot (Seurat)
Seurat
Violin-Plot
ggplot2
patchwork
1 day ago by
Assa Yeroslaviz
★ 1.8k
0
votes
0
replies
88
views
Xenium multi sample data
batch
annotation
cell
Xenium
effect
1 day ago by
Omics data mining
▴ 260
0
votes
2
replies
144
views
Phasing a mixture of two individuals' DNA with long reads
long-reads
phasing
1 day ago by
njornet
▴ 20
0
votes
2
replies
173
views
Exploring Diet Effects in Single-Cell RNA Sequencing
batch_effect
scRNA
seurat
integration
updated 22 hours ago by
Adam
▴ 30 • written 1 day ago by
Darya
• 0
0
votes
5
replies
212
views
Percentage coverage of reference genome by de novo genome
SAMtools
BWA
alignment
ddRAD
updated 1 day ago by
Joe
21k • written 1 day ago by
Lemonhope
• 0
0
votes
0
replies
129
views
Why does my Hi-C contact map show large regions making little to no contact?
BWA-MEM2
Hi-C
PretextMap
7 hours ago by
Winter
• 0
0
votes
5
replies
256
views
A question about reference genome for creating the consensus sequence
fasta
fa
cram
genome
23 hours ago by
me
• 0
2
votes
11
replies
2.6k
views
6 follow
CNVKIT - unable to produce scatter and diagram pdfs
cnvkit
updated 1 day ago by
DGTool
• 0 • written 4.8 years ago by
ww22runner
▴ 60
2
votes
1
reply
116
views
java out of memory error through beagle for imutation
beagle
java.out.of.memory
imputation
1 day ago by
analyst
▴ 50
0
votes
0
replies
80
views
Generating .bed file and .map file for polyploid vcf file through plink
bed
polyploid
map
plink
1 day ago by
analyst
▴ 50
0
votes
0
replies
77
views
Blog:
Introduction to The Complete Sequence of a Human Genome
biotech
1 day ago by
usa.cd.genomics
• 0
0
votes
0
replies
82
views
Blog:
Overview of Nanopore Sequencing
biotech
1 day ago by
usa.cd.genomics
• 0
0
votes
0
replies
94
views
meffil.snp.concordance
meffil
methylation
snp_concordance
1 day ago by
kyj222637
• 0
0
votes
1
reply
134
views
PseudobulkExpression.Seurat error
Seurat
pseudo-bulk
updated 23 hours ago by
Bastien Hervé
5.3k • written 1 day ago by
sooni
▴ 20
116,844 results • Page
1 of 2337
Recent Votes
Answer: How to solve the error 'ERROR::MATE_NOT_FOUND:Found xxx unpaired mates' when ru
A: Insert Size And Fragment Size ?
Answer: samtools 1.0 'index' : CSI index vs BAI index ?
Comment: Nextflow and self-made pipelines opinion
Comment: Nextflow and self-made pipelines opinion
What is Deepvariant default filtering values ?
Answer: Nextflow: how to get the process work dir, within the process
Recent Locations •
All
India,
1 minute ago
Italy,
2 minutes ago
United Kingdom,
2 minutes ago
São Paulo,
2 minutes ago
Russia,
2 minutes ago
Italy,
3 minutes ago
United States,
4 minutes ago
Recent Awards •
All
Popular Question
to
LauferVA
4.2k
Popular Question
to
ManuelDB
▴ 80
Popular Question
to
nkls063408
• 0
Popular Question
to
rj.rezwan
• 0
Scholar
to
Pierre Lindenbaum
161k
Popular Question
to
Albert
• 0
Scholar
to
GenoMax
142k
Recent Replies
Comment: How to analyze Infinium Mouse Methylation BeadChip array data?
by
Tawny
▴ 180
Did you get this figured out? I am having the same error in R.
Answer: JASPAR2024_getMatrixSet error
by
Raghad
• 0
Try this: ```r #Read the motifs library(JASPAR2024) library(TFBSTools) jaspar <- JASPAR2024() sq24 <- RSQLite::dbConnect(RSQLite::SQLite…
Answer: How to convert normalized BigWig file to count matrix?
by
ATpoint
82k
It's not possible. Gene counts are a region aggregate, bigwigs are a per-base readout and you cannot use normalized counts for mentioned to…
Comment: bcftools - reducing to "sites-only"?
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: bcftools - reducing to "sites-only"?
by
Matthew
• 0
Thank you Pierre! Not sure why I didn't notice that (I should have)
Comment: How to convert normalized BigWig file to count matrix?
by
Pierre Lindenbaum
161k
bigwig is chrom/start/end/value . what kind of matrix do you want ?
Comment: How to convert normalized BigWig file to count matrix?
by
feather-W
• 0
I want to use the matrix derived from bigwig files to perform different analysis by DESeq2 or edgeR.
Answer: Have you ever obtained user guide of ExomeCNV?
by
michael.s
▴ 10
I have uploaded the ExomeCNV (v1.4) user manual [here][1]. [1]: https://fastupload.io/hZbU
Answer: Server or aws cloud- which one is better for gatk pipeline
by
GenoMax
142k
I assume you mean "server" as in local hardware that you own/control since "cloud" is a just bunch of servers on internet that you rent (pa…
Answer: Server or aws cloud- which one is better for gatk pipeline
by
Michael
54k
I think that is more a matter of convenience and legality. It mostly depends on who pays for it and what you prefer. Both solutions should …
Comment: How to solve the error 'ERROR::MATE_NOT_FOUND:Found xxx unpaired mates' when ru
by
Pierre Lindenbaum
161k
> could you please explain what the collate does? http://www.htslib.org/doc/samtools-collate.html
Comment: ComBat_Seq stuck adjusting the data
by
Jaïr
• 0
Same keeps happening to me; but it is weird, I corrected the batch effect with the same exact function a few months ago and worked fine. I …
Comment: How to solve the error 'ERROR::MATE_NOT_FOUND:Found xxx unpaired mates' when ru
by
Lila M
★ 1.2k
Thank you for the feedback! I already used just the `samtools fastq -1 R1.fq.gz -2 R2.fq.gz -s Rx.fq.gz -0 R0.fq.gz`. Could you please exp…
Comment: Nextflow: how to get the process work dir, within the process
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…
Answer: How to solve the error 'ERROR::MATE_NOT_FOUND:Found xxx unpaired mates' when ru
by
Pierre Lindenbaum
161k
faster use samtools collate+ fastq samtools collate -uOn128 in.bam TMPDIR | samtools fastq -1 R1.fq.gz -2 R2.fq.gz -s Rx.fq.gz -0 R…
Traffic: 2686 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