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
112,775 results • Page
1 of 2256
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
5
views
Filter vcf SNPs by sample GT value
bcftools
variant-calling
snp
8 minutes ago by
hlebnikovdaniil
• 0
0
votes
1
reply
44
views
Kraken2 is falsely assigning Klebsiella
taxonomy
Kraken2
updated 18 minutes ago by
Philipp Bayer
7.9k • written 3 hours ago by
SushiRoll
▴ 110
0
votes
0
replies
15
views
Analysing short reads mapped to a pangenome graph
giraffe
augment
call
vg
pggb
55 minutes ago by
Kyran
• 0
0
votes
0
replies
14
views
Extract Loci based on the snps number
Loci
NGS
SNPS
1 hour ago by
safiq713
▴ 10
0
votes
0
replies
8
views
News:
Course: Seascape Genomics in R course
R
GEA
SeascapeGenomics
AdaptationGenomics
1 hour ago by
carlopecoraro2
★ 2.4k
762
votes
164
replies
123k
views
106 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 5 hours ago by
Biostar
2.0k • written 6.8 years ago by
Istvan Albert
98k
1
vote
8
replies
138
views
18S taxonomy assignment SILVA database formatting
assignTaxonomy
18S
dada2
SILVA
39 minutes ago by
mbuenner
• 0
2
votes
4
replies
295
views
Finding sequences in unannotated genomes using reference coordinates
consensus
VCF
4 hours ago by
Prangan
▴ 20
0
votes
1
reply
78
views
tximport error: vroom
tximport
updated 1 hour ago by
Kevin Blighe
86k • written 6 hours ago by
Maxine
▴ 30
0
votes
0
replies
37
views
Does ploidy in variant calling affect admixture detection with TreeMix?
ploidy
admixture
SNP
TreeMix
4 hours ago by
Michael
53k
0
votes
0
replies
45
views
multi-population vcf filtering for population genomics analysis
Filtering
WGS
Genomics
Population
VCF
5 hours ago by
qstefano
▴ 20
17
votes
11
replies
13k
views
9 follow
Converting from BED to SAF/GFF
bed
gff
saf
featureCount
written 6.8 years ago by
ccag
▴ 60
0
votes
2
replies
68
views
Error in checkFullRank(modelMatrix) :
DESeq2
updated 1 hour ago by
Basti
★ 1.7k • written 6 hours ago by
jabbari.parnian
▴ 30
1
vote
1
reply
77
views
Job:
Need help to setup a PGS pipeline
bim
fam
plink
bed
PGS
updated 10 minutes ago by
GenoMax
135k • written 8 hours ago by
Ben
▴ 20
27
votes
16
replies
29k
views
11 follow
How Do I Convert From Bed Format To Gff Format?
bed
gff
galaxy
updated 12 hours ago by
alejandrogzi
▴ 40 • written 14.0 years ago by
Istvan Albert
98k
1
vote
1
reply
198
views
tensorQTL interaction issue
genomics
eqtl
genetics
qtl
13 hours ago by
Solal
• 0
0
votes
1
reply
80
views
STAR Genome index Error
STAR
GenomeSAindex
updated 57 minutes ago by
GenoMax
135k • written 13 hours ago by
Prasanna
• 0
0
votes
0
replies
55
views
ATAC-Seq and RPKM
RPKM
ATAC-Seq
and
14 hours ago by
qudrat.nii
• 0
0
votes
1
reply
92
views
Kimura% of calcDivergenceFromAlign output
repeatlandscape
repeatmasker
15 hours ago by
睿紘
• 0
0
votes
4
replies
161
views
Understanding mother and father alleles in VCF file
snp
vcf
15 hours ago by
c.
• 0
3
votes
2
replies
166
views
Forum:
How do you validate and verify your pipeline's software updates?
Validation
Verification
Quality-Assurance
updated 16 hours ago by
ATpoint
77k • written 17 hours ago by
kieran
• 0
1
vote
2
replies
297
views
Differentially Expressed Genes between two conditions (scRNA, single GEO dataset with multiple samples and no cell annotations)
scRNA-seq
RNA-Seq
Seurat
4 hours ago by
prietto
• 0
0
votes
0
replies
50
views
Help on dendrimer building
dendrimer
gromacs
molecular-dynamics
17 hours ago by
v.berriosfarias
▴ 130
0
votes
0
replies
70
views
Adding custom annotation to VEP output VCF
bcftools
VEP
vcf
17 hours ago by
avelarbio46
▴ 30
0
votes
9
replies
283
views
Deseq2 error
R
deseq2
16 hours ago by
sgadila
• 0
0
votes
1
reply
93
views
WGCNA plotEigengeneNetworks error (coercion to logical)
WGCNA
plotEigengeneNetworks
RNA-seq
RStudio
updated 17 hours ago by
Ram
40k • written 18 hours ago by
Victor
• 0
0
votes
0
replies
68
views
News:
Course :MACHINE LEARNING - A HANDS-ON INTRODUCTION IN R
R
Statistical-Learning
Omics
Machine-Learning
updated 17 hours ago by
Ram
40k • written 18 hours ago by
carlopecoraro2
★ 2.4k
3
votes
2
replies
116
views
Feature plot not applicable for RunTSNE object in seurat?
harmony
Seurat
single-cell
18 hours ago by
synat.keam
▴ 80
0
votes
2
replies
136
views
Get discordant read pairs from bam
samtools
NGS
updated 20 hours ago by
benformatics
3.8k • written 21 hours ago by
paulaotero.sanchez
• 0
0
votes
1
reply
466
views
Low percentage of 'Fraction Antibody Reads Usable' in Feature Barcode Cell Ranger output
scCITE-seq
feature-barcode
10x
scRNA-seq
updated 16 hours ago by
Ram
40k • written 5 months ago by
rocio.castellanos
• 0
3
votes
6
replies
212
views
Exporting DEGs obtained from DESeq2
R
Deseq2
updated 18 hours ago by
Ram
40k • written 20 hours ago by
camillab.
▴ 140
0
votes
2
replies
165
views
I need help with univariate logistic regression in a set of microarray data
R
microarray
odds-ratio
updated 20 hours ago by
Ram
40k • written 1 day ago by
Pooria
• 0
0
votes
11
replies
328
views
Rockhoppper - Suspiciously low percentage of perfectly aligned reads
Rockhopper
RNA-seq
51 minutes ago by
langziv
▴ 50
0
votes
2
replies
135
views
pheatmap
pheatmap
heatmap
differential-expression
RNA-seq
3 hours ago by
Sara
▴ 30
0
votes
0
replies
69
views
Adding means cluster from fviz_cluster on the PCA
fviz_cluster
updated 21 hours ago by
Ram
40k • written 23 hours ago by
ayaosama2111
▴ 10
0
votes
0
replies
69
views
DMRcate design
R
Epigenetics
EPIC
DMRcate
updated 21 hours ago by
Ram
40k • written 1 day ago by
Bioinfonext
▴ 440
2
votes
5
replies
372
views
Snakemake alignment script
snakemake
alignment
written 5 days ago by
Begonia_pavonina
▴ 110
21
votes
7
replies
10k
views
Forum:
Bioinformatics short paper journal resource [software/webapps/database]
journal
software
webapp
updated 1 day ago by
Gennady Khvorykh
▴ 100 • written 7.5 years ago by
Sukhi Singh
11k
0
votes
1
reply
236
views
Determine kit used for library preparation for whole exome sequencing from fastq files
Agilent
NGS
library-preparation
updated 17 hours ago by
Ram
40k • written 1 day ago by
Harinder
• 0
0
votes
1
reply
118
views
Bam sort merge error?
bam
linux
sam
updated 1 day ago by
Pierre Lindenbaum
157k • written 1 day ago by
Athena
• 0
0
votes
0
replies
79
views
Algorithmic Solutions for Resolving Overlapping Sequences in Sanger Sequencing of PCR Segments
Sanger
pcr
updated 21 hours ago by
Ram
40k • written 1 day ago by
Amior
• 0
0
votes
1
reply
131
views
How to assign gene names after kallisto when I add GFP?
tximport
RNA-seq
kallisto
updated 1 day ago by
dsull
★ 4.8k • written 1 day ago by
bioinfo
▴ 110
0
votes
2
replies
162
views
Generating a 3D model from 2D slices of a nucleus
imaging
modeling
18 hours ago by
jachimowicz9002
▴ 10
0
votes
2
replies
190
views
GOSt Plot
GOSt
ggplot2
updated 1 day ago by
bk11
★ 1.4k • written 2 days ago by
Sarah
• 0
5
votes
8
replies
308
views
The RNA velocity are opposite in 'dynamical' and 'stochastic' modes.
RNA-velocity
updated 1 day ago by
james.hawley
▴ 40 • written 1 day ago by
Dan
▴ 160
0
votes
4
replies
206
views
counting from a single BAM file with multiple samples
cell-barcode
RNA-seq
updated 1 day ago by
LChart
3.4k • written 1 day ago by
dr-device
• 0
4
votes
10
replies
357
views
Help with error running velocyto
velocyto
1 day ago by
Chris
▴ 200
0
votes
3
replies
269
views
DEG gene list and find common TF from public ChlP-Seq data
chip-seq
TF
updated 1 day ago by
Trivas
★ 1.5k • written 3 days ago by
Joshua
• 0
2
votes
6
replies
280
views
Match variants from RNAseq with known databases
dbsnp
SNP
vcf
bcftools
RNA-seq
1 day ago by
dilokef367
• 0
3
votes
3
replies
311
views
How to get ncol = nrow?
DESeq2
updated 1 day ago by
Ram
40k • written 3 days ago by
Suha
• 0
112,775 results • Page
1 of 2256
Recent Votes
Answer: Sequence Number Count In Fastq.Gz File
Answer: Create a bed file bins from fasta?
Comparison of module expression across WGCNA networks
How to relate a categorical external trait (case, control) into WGCNA network?
Answer: 18S taxonomy assignment SILVA database formatting
C: Extract Reads From A Bam File That Fall Within A Given Region
How to download multiple expression datasets from EBI database using ArrayExpress
Recent Locations •
All
Spain,
just now
Stony Brook University, NY,
1 minute ago
Ireland,
2 minutes ago
United States,
2 minutes ago
United Kingdom,
3 minutes ago
United States,
4 minutes ago
UK,
6 minutes ago
Recent Awards •
All
Popular Question
to
Vasu
▴ 730
Popular Question
to
hemantcnaik
• 0
Popular Question
to
mfro
• 0
Popular Question
to
safiq713
▴ 10
Scholar
to
antonioggsousa
2.9k
Popular Question
to
chi.delta
▴ 40
Popular Question
to
Marco Pannone
▴ 760
Recent Replies
Comment: Need help to setup a PGS pipeline
by
GenoMax
135k
You will need to provide at least one way for people to contact you. Please edit the post and add that information.
Answer: Kraken2 is falsely assigning Klebsiella
by
Philipp Bayer
7.9k
I've also had false positive hits with Kraken, usually a --confidence of 0.1 gets rid of *most* of them. This paper deals a bit with the …
Comment: Rockhoppper - Suspiciously low percentage of perfectly aligned reads
by
langziv
▴ 50
I reduced the data to 50x with seqtk and got the same percentage. What do you think about combining the assembly so that it will be a gen…
Comment: 18S taxonomy assignment SILVA database formatting
by
GenoMax
135k
https://www.biostars.org/u/96c44ed8/ : Please take a moment to properly format the original post. Highlighting text and then using `101010`…
Comment: 18S taxonomy assignment SILVA database formatting
by
mbuenner
• 0
To me it seems consistent in the fungi. I will filter for the Fungi. So you helped me a lot actually! Thank you!
Comment: tximport error: vroom
by
Kevin Blighe
86k
Cross-posted: https://support.bioconductor.org/p/9154550/
Comment: 18S taxonomy assignment SILVA database formatting
by
antonioggsousa
2.9k
I understand the issue, but I do not have an easy fix. The problem is that some sequences have different levels of taxonomic levels. For …
Comment: Error in checkFullRank(modelMatrix) :
by
Basti
★ 1.7k
Apart from the response below, your design is strange. Why did you want to adjust for sample if you want to compare the expression between …
Comment: 18S taxonomy assignment SILVA database formatting
by
mbuenner
• 0
Changing it a bit to `$ awk 'BEGIN{FS=";"; OFS=";"} /^>/ { print $4,$5,$6,$7,$8;$9;$10; next; }; { print; }' SILVA_132_taxonomy_assignmen…
Answer: 18S taxonomy assignment SILVA database formatting
by
antonioggsousa
2.9k
I'm not an expert on `awk`, but I tried the following and it seems to work. Instead of using the original downloaded file, give your latest…
Comment: 18S taxonomy assignment SILVA database formatting
by
mbuenner
• 0
Thank you for editing the post and for your answer. Sadly, the linked formatted database does not contain Fungi, e.g. when I grep 'Fungi'…
Comment: pheatmap
by
Sara
▴ 30
Thank you for your comment, but it did not help!
Comment: 18S taxonomy assignment SILVA database formatting
by
antonioggsousa
2.9k
Please, whenever you need to add more information, just edit your original post and do not add answers below unless you found the solution …
Comment: Clustalo failing to complete multiple sequence alignments
by
saamhasan55
▴ 10
Hi, I know this is an old thread, but I am encountering a similar problem. I am trying to do an msa for the cds sequences of 5 bumblebee sp…
Comment: 18S taxonomy assignment SILVA database formatting
by
antonioggsousa
2.9k
Hi! Please share first with us an example how the data looks like, the command-line you're running and the problem that you're getting. If…
Traffic: 2148 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