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12,527 results • Page
2 of 251
Sort: replies
Rank
Views
Votes
Replies
10
votes
33
replies
3.9k
views
Looking for a tool like fastq screen but for ONT data
gridion
nanopore
ont
minion
updated 11 months ago by
Ram
43k • written 5.8 years ago by
Rox
★ 1.4k
10
votes
31
replies
11k
views
10 follow
Tutorial:
OrthoMCL installation on Ubuntu Linux
ubuntu
orthomcl
mysql
linux
updated 6 months ago by
ha2606
• 0 • written 6.4 years ago by
vimalkvn
▴ 320
105
votes
31
replies
95k
views
18 follow
Best Way To Merge A Many Thousand Small Bam Files Into One Big Bam File?
bam
picard
samtools
merge
updated 5 months ago by
mmfansler
▴ 450 • written 12.9 years ago by
2184687-1231-83-
★ 5.1k
11
votes
31
replies
15k
views
6 follow
How to concatenate multiple fasta file
sequence
genome
updated 11 months ago by
doggie
• 0 • written 5.8 years ago by
fec2
▴ 50
120
votes
31
replies
200k
views
17 follow
Correct Way To Parse A Fasta File In Python
python
fasta
updated 6 months ago by
Ram
43k • written 14.1 years ago by
Eric Normandeau
11k
147
votes
31
replies
138k
views
26 follow
Useful Bash Commands To Handle Fasta Files
command-line
fasta
bash
updated 9 months ago by
Ram
43k • written 12.2 years ago by
Anima Mundi
★ 2.9k
31
votes
30
replies
15k
views
6 follow
Tool:
BioVinci: user-friendly software to make plotting easy - PCA, 3D scatter plot, venn diagram, you name it.
gene
RNA-Seq
Venn-diagram
PCA
updated 11 months ago by
Ram
43k • written 6.0 years ago by
Jennifer Pham
▴ 450
18
votes
30
replies
10k
views
6 follow
Tool:
Introducing FilterByTile: Remove Low-Quality Reads Without Adding Bias
Illumina
BBMap
filterbytile
updated 11 months ago by
Ram
43k • written 7.4 years ago by
Brian Bushnell
20k
58
votes
30
replies
11k
views
13 follow
Content Management Systems For Bioinformatics Websites
web
updated 6 months ago by
Ram
43k • written 14.1 years ago by
Khader Shameer
18k
50
votes
30
replies
11k
views
13 follow
Tutorial:
How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
documentation
meta
how-to
updated 7 weeks ago by
Istvan Albert
100k • written 8.2 years ago by
Ram
43k
102
votes
30
replies
62k
views
25 follow
Tools To Find Gene Ontology Term Enrichment
gene
enrichment
updated 6 months ago by
Ram
43k • written 14.2 years ago by
Biostar User
★ 1.0k
16
votes
29
replies
1.8k
views
Gene labels problem in enhanced volcano
R
ggplot2
enhancedvolcano
updated 3 months ago by
Mensur Dlakic
★ 27k • written 3 months ago by
anasjamshed
▴ 120
124
votes
29
replies
7.4k
views
18 follow
What License Do You Use When You Release Code And Data?
software
general
subjective
updated 6 months ago by
Ram
43k • written 14.2 years ago by
Simon Cockell
7.4k
84
votes
29
replies
32k
views
20 follow
Tutorial:
How to create a mutation landscape (waterfall) plot with GenVisR
BioConductor
GenVisR
Graphics
R
updated 10 months ago by
amziepickles
• 0 • written 8.2 years ago by
Obi Griffith
20k
20
votes
29
replies
2.5k
views
6 follow
Using bcftools to find unique alt homozygous sites
bcftools
updated 7 months ago by
Pierre Lindenbaum
161k • written 7 months ago by
Axzd
▴ 70
70
votes
29
replies
15k
views
13 follow
Tutorial:
Generating consensus sequence from bam file
fasta
consensus
bam
updated 9 weeks ago by
jkbonfield
★ 1.2k • written 5.2 years ago by
finswimmer
16k
4
votes
29
replies
11k
views
6 follow
WGCNA soft thresholding problem
WGCNA
RNA-Seq
soft thresholding
data normalization
updated 12 weeks ago by
foejvs546
▴ 10 • written 5.5 years ago by
catagui
▴ 40
29
votes
28
replies
34k
views
11 follow
Split Fastq Files Into Chunks Of 1M Reads
split
fastq
updated 17 days ago by
thomas.heigl.ibk
• 0 • written 12.8 years ago by
Bioscientist
★ 1.7k
43
votes
28
replies
5.7k
views
13 follow
Post Your Prefered Bioinformatics Short Code
code
updated 6 months ago by
Ram
43k • written 14.1 years ago by
Eric Normandeau
11k
39
votes
28
replies
11k
views
10 follow
How Much Does It Cost To Align A Flowcell In The Cloud?
cloud
3 months ago by
Jeremy Leipzig
22k
3
votes
27
replies
2.6k
views
7 follow
Forum:
What server do you use?
HPC
AWS
updated 12 months ago by
Ram
43k • written 5.8 years ago by
caggtaagtat
★ 1.9k
197
votes
27
replies
35k
views
20 follow
Forum:
Bioinformatics Cartoon
bioinformatics
updated 10 months ago by
Ram
43k • written 12.4 years ago by
Maxime Lamontagne
★ 2.3k
26
votes
27
replies
2.2k
views
10 follow
Forum:
Determining computer time required
computer
hpc
time
updated 4 months ago by
dsull
★ 6.0k • written 4 months ago by
Rozita
▴ 40
82
votes
27
replies
21k
views
12 follow
ATAC-seq sample normalization
ChIP-Seq
atac-seq
normalization
updated 6 weeks ago by
sgv
• 0 • written 4.4 years ago by
Flo
▴ 250
73
votes
27
replies
28k
views
16 follow
Tutorial:
How To Separate Illumina Based Strand Specific Rna-Seq Alignments By Strand
RNA-seq
updated 5 months ago by
snardeli
• 0 • written 10.3 years ago by
Istvan Albert
100k
28
votes
27
replies
15k
views
9 follow
Extracting A Subset Of Sequences From A Fastq File (Biopython Speed)
biopython
python
fastq
next-gen-sequencing
updated 6 months ago by
Ram
43k • written 14.1 years ago by
Darked89
4.6k
27
votes
27
replies
10k
views
6 follow
How To Detect And Query Poly-Allelic Snps?
snp
allele
biomart
dbsnp
updated 6 months ago by
Ram
43k • written 14.2 years ago by
Michael
54k
77
votes
26
replies
121k
views
15 follow
How to count fastq reads
sequence
next-gen
fastq
reads
updated 5 months ago by
cschu181
★ 2.8k • written 9.1 years ago by
Chenglin
▴ 260
24
votes
26
replies
3.7k
views
Tool:
ClinCNV: CNV detection from short reads
variant-calling
cna
cnv
updated 11 months ago by
Ram
43k • written 4.6 years ago by
German.M.Demidov
★ 2.9k
38
votes
26
replies
19k
views
16 follow
GO analysis: DAVID vs GREAT vs GOrilla
RNA-Seq
ChIP-Seq
GO
gene ontology
written 8.2 years ago by
biostart
▴ 370
21
votes
26
replies
9.8k
views
11 follow
Tutorial:
Create de novo repeat library
de-novo
repeat
annotation
updated 9 weeks ago by
Yao
▴ 30 • written 4.5 years ago by
Juke34
8.6k
81
votes
26
replies
13k
views
17 follow
Appropriate Podcasts For A Bioinformatician?
subjective
updated 6 months ago by
Ram
43k • written 14.2 years ago by
User 59
13k
3
votes
26
replies
2.0k
views
6 follow
STAR Genome index Error
STAR
updated 7 months ago by
Ram
43k • written 7 months ago by
Prasanna
• 0
47
votes
26
replies
4.2k
views
11 follow
Blog:
Evolution of Biostars
meta
Biostars
updated 9 months ago by
aldhairmedico
▴ 70 • written 5.2 years ago by
venu
7.1k
96
votes
26
replies
31k
views
15 follow
What Methods Do You Use For In/Del/Snp Calling?
short-read-aligner
snp
sequencing
updated 6 months ago by
Ram
43k • written 14.1 years ago by
Pierre Lindenbaum
161k
20
votes
26
replies
3.3k
views
Is there a command line tool that can take an alignment fasta and input and outputs an image?
alignment
fasta
image
updated 9 months ago by
Joe
21k • written 4.9 years ago by
Joel Wallenius
▴ 210
105
votes
26
replies
43k
views
23 follow
How To Create Mutation Diagram In R Or In Any Tools?
mutation
domain
r
updated 8 months ago by
zx8754
11k • written 11.3 years ago by
henryvuong
▴ 810
7
votes
25
replies
11k
views
6 follow
Tool:
MIGEC: towards error-free profiling of immune repertoires
sequencing-error
tcr
antibody
molecular-barcode
updated 11 months ago by
Ram
43k • written 10.0 years ago by
mikhail.shugay
3.5k
69
votes
25
replies
7.1k
views
16 follow
How Do You Explain What You Do To The Guy On The Street Or Your Mum?
general
updated 6 months ago by
Ram
43k • written 14.2 years ago by
Dave Gerrard
▴ 190
13
votes
25
replies
11k
views
9 follow
Tool:
Mitcr: A Software Tool For Analyzing T-Cell Receptor Sequencing Data
analysis
sequencing
ngs
updated 10 months ago by
Ram
43k • written 10.8 years ago by
mikhail.shugay
3.5k
36
votes
25
replies
32k
views
15 follow
Downsampling dataset with more than 60 million reads
next-gen
RNA-Seq
updated 5 months ago by
asalimih
▴ 60 • written 9.8 years ago by
mike
▴ 90
38
votes
25
replies
9.2k
views
13 follow
FASTA file of fixed length
sequence
fasta
updated 8 months ago by
Ram
43k • written 8.1 years ago by
waqasnayab
▴ 250
6
votes
25
replies
39k
views
14 follow
CluserProfiler message "No gene can be mapped"
R
updated 11 months ago by
13554221497
• 0 • written 6.2 years ago by
ARich
▴ 130
60
votes
25
replies
22k
views
17 follow
Which Operating System Do You Prefer For Bioinformatics?
general
subjective
updated 7 months ago by
Ram
43k • written 14.3 years ago by
Giovanni M Dall'Olio
28k
18
votes
25
replies
15k
views
13 follow
Easy way to split VCF file by chromosome
sequence
TOPMED
chromosome
Imputation
SNP
updated 10 months ago by
Pierre Lindenbaum
161k • written 2.3 years ago by
ConvolutedGenome
▴ 30
13
votes
25
replies
4.4k
views
7 follow
VEP output has no gene names
alignment
sequencing
vep
updated 11 months ago by
barslmn
★ 2.2k • written 5.8 years ago by
Gene_MMP8
▴ 240
60
votes
25
replies
5.8k
views
8 follow
Forum:
Am I crazy, or are most published RNA-seq studies vastly underpowered?
sample-size
statistical-power
RNA-Seq
updated 11 months ago by
Ram
43k • written 3.8 years ago by
telroyjatter
▴ 230
51
votes
25
replies
6.9k
views
10 follow
What Is Your Experience With Bioinformatics Webservices?
web-service
subjective
updated 6 months ago by
Ram
43k • written 14.2 years ago by
Michael
54k
17
votes
25
replies
2.5k
views
Tool:
Platform for Bioinformatics Students, Scholars and Scientists
sequence
genome
updated 10 months ago by
Ram
43k • written 8.2 years ago by
support
▴ 50
68
votes
25
replies
16k
views
12 follow
Tool:
sra-explorer : find SRA and FastQ download URLs in a couple of clicks
fastq
SRA
updated 6 months ago by
GenoMax
142k • written 5.2 years ago by
Phil Ewels
★ 1.4k
12,527 results • Page
2 of 251
Recent Votes
Answer: How to add Ensembl id to cluster.markers in Seurat
How to add Ensembl id to cluster.markers in Seurat
Comment: Duplicated sequence samtools
Answer: Duplicated sequence samtools
Answer: Duplicated sequence samtools
Answer: How to add Ensembl id to cluster.markers in Seurat
Sequence alignment on split read event such as inversion, duplication and complex nested events.
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Scholar
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Pierre Lindenbaum
161k
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▴ 30
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★ 2.5k
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scideas
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★ 1.8k
Recent Replies
Comment: Is it Possible to "Merge" data from Replicates within a VCF SNP File
by
Pierre Lindenbaum
161k
> Cannot read non-existent file: file:///local/home/User/VCF_Filtering/biostar.code your file doesn't exist, is at the wrong place etc.
Comment: Is it Possible to "Merge" data from Replicates within a VCF SNP File
by
ajbarrett98
• 0
Hi Pierre, I am attempting to run this code and am running into this error: (jvar) $ jvarkit vcffilterjdk -f biostar.code Dart_VCF2_Or…
Comment: scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
by
ATpoint
82k
I cannot give a precise answer, as ML is not my field, but generally, why don't you apply the method to pseudobulks of the exact single-cel…
Answer: geom_bar issue in ggplot2 with xlim()
by
ATpoint
82k
https://stackoverflow.com/questions/10365167/geom-bar-bars-not-displaying-when-specifying-ylim
Comment: What marks a De-Novo Genome assembly as FAILED?
by
Umer
▴ 50
Yes. We are sequencing 45 different samples with illumina. 12 of these are also going to be sequenced with Nanopore (for hybrid assembly). …
Comment: HGVS Nomenclature of Multiple Indels found in Cis
by
LauferVA
4.2k
how has this code progressed? is it publically available? would you want to work together?
Comment: Design for complex RNA-Seq experiment using Deseq2
by
Ezequiel
• 0
I completely agree with most points. The PCA shows that the biggest driver of difference is the patients themselves, with PRE and POST time…
Comment: Add stats to the plot
by
marco.barr
▴ 130
Hi, you can add statistical annotations using `ggpubr` function `stat_pvalue_manual `. You need to make sure you calculate the p-values fir…
Answer: seqtk subseq in.fastq list.txt > out.fastq not extracting full sequence from
by
ATpoint
82k
Use everything before the whitespace in list.txt, for example `A00869:294:HCW57DSXY:2:1101:3929:1000` and not `A00869:294:HCW57DSXY:2:1101:…
Answer: CellRanger output more cells than specified using --force-cells? Why?
by
scideas
▴ 30
I actually had this same issue with CellRanger v7- turns out that since you have 2 species in your mapping reference, CellRanger is forcing…
Answer: Checking chromosome builds for genotyping data
by
Muhammad
• 0
Assume you have genotype data in Plink format. (G.bed, G.bim, G.fam) Download some reference panel data in Plink format (R.bed, R.bim, R.f…
Comment: Error in CIBERSORTx ($ operator is invalid for atomic vectors)
by
nguyenn6
• 0
did you ever figure it out? i'm having the same issue.
Comment: Traveler with Infernal mapping failed
by
anton.i.petrov
• 0
Hi Larissa! I am the lead developer of R2DT and I've just noticed this question. Could you please email help@r2dt.bio with your input seque…
Comment: constructing pangenome through psvcp
by
analyst
▴ 50
Fixed the issue by updating nucmer version.
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
GenoMax
142k
Can you create a small test database (`makeblastdb`) from your query file and try to run the search against the same file and see if that w…
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