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 : this year
all time
today
this week
this month
this year
516 results • Page
2 of 11
Sort: replies
Rank
Views
Votes
Replies
15
votes
11
replies
8.3k
views
Tool:
Arriba: Fast and accurate gene fusion detection from RNA-Seq data
variant-calling
RNA-Seq
cancer
gene-fusion
updated 11 months ago by
Ram
44k • written 6.3 years ago by
uhrigs
▴ 150
17
votes
11
replies
11k
views
6 follow
Tool:
Pyfaidx: Efficient, "Pythonic" Random Access To Fasta Files Using Samtools-Compatible Indexing
fasta
python
samtools
updated 11 months ago by
Ram
44k • written 10.3 years ago by
Matt Shirley
10k
21
votes
11
replies
11k
views
Tool:
Segemehl: A Fast One-Stop-Shop Mapping Tool
mapping
next-gen
updated 11 months ago by
Ram
44k • written 11.7 years ago by
David Langenberger
11k
11
votes
10
replies
2.3k
views
Tool:
[Crushing the bureaucracy in bioinformatics] Introducing Skymap-JupyterHub: accessing and utilizing reprocessed expression/ allelic read count profil…
SNP
RNA-Seq
ChIP-Seq
updated 11 months ago by
Ram
44k • written 5.8 years ago by
btsui
▴ 300
23
votes
10
replies
12k
views
Tool:
ggtree: phylogenetic tree visualization and annotation
ggtree
phylogeny
visualization
updated 11 months ago by
Ram
44k • written 7.9 years ago by
Guangchuang Yu
★ 2.6k
3
votes
10
replies
1.7k
views
Tool:
Quick & dirty DNA coordinates in any mac app
sequence
alignment
updated 11 months ago by
Ram
44k • written 6.2 years ago by
rleach
▴ 180
14
votes
10
replies
7.9k
views
Tool:
ReactomePA: an R/Bioconductor package for reactome pathway analysis and visualization
ReactomePA
R
Visualization
Pathway
Bioconductor
updated 11 months ago by
Ram
44k • written 7.9 years ago by
Guangchuang Yu
★ 2.6k
7
votes
10
replies
1.5k
views
Tool:
SamReadViewer - A small utility to visualise read alignment directly from sam format without reference.
samreadviewer
updated 11 months ago by
Ram
44k • written 3.7 years ago by
Juke34
8.6k
12
votes
9
replies
7.8k
views
Tool:
gogadget: an R package for go analysis visualization and interpretation
goseq
R
RNA-Seq
gogadget
updated 11 months ago by
Ram
44k • written 7.8 years ago by
Benn
8.3k
17
votes
9
replies
17k
views
6 follow
Tool:
ggrepel: repel overlapping text labels in ggplot2
R
visualization
updated 11 months ago by
Ram
44k • written 8.4 years ago by
Kamil
★ 2.3k
7
votes
9
replies
4.1k
views
Tool:
VCF-simplify: a VCF simplification tool.
VCF
variants
genome
updated 11 months ago by
Ram
44k • written 6.1 years ago by
kirannbishwa01
★ 1.6k
3
votes
9
replies
3.6k
views
Tool:
Download all refseq/genbank bacterial genomes from NCBI
genome
sequencing
updated 11 months ago by
Ram
44k • written 7.3 years ago by
johnsrc06
▴ 10
19
votes
9
replies
6.1k
views
Tool:
Rlsim, A Package For Simulating Rna-Seq Library Preparation With Parameter Estimation
simulation
rna-seq
pcr
illumina
updated 11 months ago by
Ram
44k • written 11.1 years ago by
Botond Sipos
★ 1.7k
15
votes
9
replies
3.4k
views
Tool:
FlexiDot: highly customizable, ambiguity-aware dotplots
dotplot
visualization
sequence-analysis
updated 11 months ago by
Ram
44k • written 6.0 years ago by
toheitka
▴ 230
8
votes
9
replies
9.0k
views
Tool:
Lofreq: A Fast And Sensitive Variant-Caller For Inferring Single-Nucleotide Variants From Ngs Data
snp
next-gen
somatic-variant
updated 11 months ago by
Ram
44k • written 11.6 years ago by
Andreas
★ 2.5k
9
votes
9
replies
4.7k
views
Tool:
pyCirclize - Circular visualization in Python
visualization
circos
matplotlib
genome
python
updated 9 months ago by
shuo
• 0 • written 17 months ago by
moshi
▴ 150
4
votes
9
replies
2.7k
views
Tool:
CANEapp, a user-friendly application for automated next generation transcriptomic data analysis
RNA-Seq
written 8.3 years ago by
dvelmeshev
• 0
34
votes
9
replies
11k
views
7 follow
Tool:
Bwa-Meth: Align And Tabulate Bs-Seq Reads
methylation
updated 11 months ago by
Ram
44k • written 10.3 years ago by
brentp
24k
17
votes
9
replies
6.1k
views
Tool:
Pathomx: Metabolic Pathway Visualisation And Analysis
python
pathway-visualization
updated 11 months ago by
Ram
44k • written 11.1 years ago by
Martin Fitzpatrick
▴ 180
3
votes
8
replies
6.3k
views
Tool:
MFEprimer-2.0: A Fast Thermodynamics-Based Program For Checking Pcr Primer Specificity
primer
pcr
updated 11 months ago by
Ram
44k • written 12.0 years ago by
Wubin Qu
▴ 170
6
votes
8
replies
4.9k
views
Tool:
Read-based phasing with WhatsHap
phasing
updated 11 months ago by
Ram
44k • written 7.5 years ago by
Marcel M
▴ 100
5
votes
8
replies
7.1k
views
6 follow
Tool:
Converting MUMmer snps file to a real VCF file
VCF
mummer
SNP
updated 11 months ago by
Ram
44k • written 4.8 years ago by
Matteo Schiavinato
★ 3.6k
22
votes
8
replies
6.6k
views
Tool:
BioTuring Browser: Making single-cell sequencing data in published studies really accessible!
scRNA-Seq
single-cell
updated 11 months ago by
Ram
44k • written 5.7 years ago by
sonpham
▴ 580
3
votes
8
replies
745
views
Tool:
Generate unit-tested, ready-to-run pipelines using natural language prompting
NGS
pipeline
genomics
cloud
AI
updated 3 months ago by
Ram
44k • written 3 months ago by
Kevin
▴ 50
2
votes
8
replies
3.7k
views
Tool:
Mirnakey - A Software Pipeline For The Analysis Of Microrna Deep Sequencing Data
mirna
updated 11 months ago by
Ram
44k • written 11.8 years ago by
Istvan Albert
100k
10
votes
8
replies
1.9k
views
6 follow
Tool:
"bioalcidae, samjs and vcffilterjs" published in bioinformatics.
jvarkit
bam
vcf
javascript
java
updated 11 months ago by
Ram
44k • written 6.5 years ago by
Pierre Lindenbaum
162k
13
votes
8
replies
4.4k
views
Tool:
MSigDB for Multiple Organisms in a Tidy Data Format
msigdb
pathways
R
gsea
updated 11 months ago by
Ram
44k • written 6.1 years ago by
igor
13k
5
votes
7
replies
3.7k
views
Tool:
CircTools: Softwares for Discovering circRNA-microRNA Interactions from CLIP-Seq Datasets
circRNA
CLIP-seq
microRNA
RNA-seq
Interactome
updated 11 months ago by
Ram
44k • written 6.1 years ago by
lsp03yjh
▴ 860
9
votes
7
replies
3.0k
views
Tool:
DiffBind 3.0: Extensive updates in Bioconductor 3.12
DiffBind
ChIP-Seq
diffbind
ATAC-seq
chipseq
updated 11 months ago by
Ram
44k • written 3.6 years ago by
Rory Stark
★ 2.0k
2
votes
7
replies
2.7k
views
Tool:
metaflagstat.py - painless bam/sam read flag counting
samtools
bam
updated 11 months ago by
Ram
44k • written 9.8 years ago by
John
13k
6
votes
7
replies
2.5k
views
Tool:
Workflow for structural variants from long read sequencing data
structural-variation
pacbio
nanopore
snakemake
updated 11 months ago by
Ram
44k • written 5.6 years ago by
WouterDeCoster
47k
4
votes
7
replies
1.4k
views
Tool:
Elloreas, a new genome assembler
Assembly
next-gen
updated 11 months ago by
Ram
44k • written 4.0 years ago by
shelkmike
★ 1.2k
2
votes
7
replies
2.9k
views
Tool:
An online cute tool to query tumor-gene data from MSK-IMPACT project
MSK-IMPACT
tumor
mutation
MSK
updated 11 months ago by
Ram
44k • written 7.0 years ago by
chen
★ 2.5k
7
votes
7
replies
4.7k
views
Tool:
Variant Annotation, Analysis and Search Tool - VAAST2
VAAST2
VAAST
updated 11 months ago by
Ram
44k • written 10.1 years ago by
Zev.Kronenberg
12k
9
votes
7
replies
3.6k
views
Tool:
metaViC: Virus metagenomics pipeline for unknown host or in absence of a host genome
Assembly
metagenomics
ngs
updated 11 months ago by
Ram
44k • written 7.8 years ago by
Sej Modha
5.3k
13
votes
7
replies
9.8k
views
Tool:
Command-Line Software For Bigwig Data
bigwig
updated 11 months ago by
Ram
44k • written 10.6 years ago by
andypohl
▴ 90
6
votes
7
replies
3.1k
views
Tool:
MutScan: detect and visualize target mutations by just scanning FastQ, 50X faster than normal pipelines
Mutation
FastQ
MutScan
OpenGene
updated 11 months ago by
Ram
44k • written 7.2 years ago by
chen
★ 2.5k
12
votes
7
replies
3.2k
views
Tool:
Chromozoom: The Genome Browser That Lets You Fly!
genome-browser
browser
updated 11 months ago by
Ram
44k • written 11.3 years ago by
Istvan Albert
100k
4
votes
7
replies
4.6k
views
6 follow
Tool:
MAGERI: a software tool for calling rare variants and detecting circulating tumor DNA from UMI-tagged high-throughput sequencing data
rare-variant
resequencing
umi
ctDNA
updated 3 months ago by
blid11
• 0 • written 7.1 years ago by
mikhail.shugay
3.5k
3
votes
7
replies
1.4k
views
Tool:
New method for protein secondary structure prediction
protein
secondary-structure
updated 11 months ago by
Ram
44k • written 4.7 years ago by
vytarasov
▴ 180
54
votes
7
replies
4.0k
views
6 follow
Tool:
Looking For People That Would Try A Custom Genome Viewer That I Wrote For Bioinformatics
genome-viewer
updated 11 months ago by
Ram
44k • written 11.0 years ago by
chbelhumeur2000
▴ 40
28
votes
7
replies
11k
views
Tool:
Quast Is A Convenient Tool For Assembly Evaluation
assembly
quality
updated 11 months ago by
Ram
44k • written 11.2 years ago by
Nikolay Vyahhi
★ 1.3k
6
votes
6
replies
4.8k
views
Tool:
Reading/ Writing FASTA files in Java
FASTA
Java
updated 11 months ago by
Ram
44k • written 9.5 years ago by
alex
• 0
27
votes
6
replies
16k
views
Tool:
Bioawk - Fasta, Fastq, Sam, Bed, Gff Aware Awk Programming
awk
updated 11 months ago by
Ram
44k • written 11.9 years ago by
Istvan Albert
100k
13
votes
6
replies
4.9k
views
Tool:
GAWN - Genome Annotation Without Nightmares
genome-annotation
updated 11 months ago by
Ram
44k • written 6.8 years ago by
Eric Normandeau
11k
2
votes
6
replies
3.5k
views
Tool:
microbiomeMarker: microbiome biomarker analysis in R
stamp
microbiome
lefse
updated 11 months ago by
Ram
44k • written 3.9 years ago by
yiluheihei
▴ 30
2
votes
6
replies
2.1k
views
Tool:
Primer design shiny app
SNP
sequencing
updated 11 months ago by
Ram
44k • written 7.6 years ago by
indiegene.blr
▴ 10
7
votes
6
replies
6.5k
views
Tool:
PlantTFDB and PlantRegMap: Plant Transcription Factor Database and Plant Regulation Data and Analysis Platform
transcriptional-regulation
enrichment
binding-site
updated 11 months ago by
Ram
44k • written 7.6 years ago by
jin
▴ 80
12
votes
6
replies
3.5k
views
Tool:
Variant annotation and filtration server ALAPY Genome Explorer (AGx)
vcf
variant-annotation
variant-interpretation
updated 11 months ago by
Ram
44k • written 7.0 years ago by
Petr Ponomarenko
★ 2.8k
2
votes
6
replies
2.2k
views
Tool:
Python script to query GeneCards to get EntrezID, symbol from Ensembl geneID
biomart
annotation
Ensembl
updated 14 hours ago by
Mike Smith
★ 2.0k • written 2.8 years ago by
Shred
★ 1.4k
516 results • Page
2 of 11
Recent Votes
Answer: Search within posts based on tags using the Biostars API
A: RIP-Seq data analysis
Comment: bbmerge (bbmap) ~ error with insert size file output
Comment: bbmerge (bbmap) ~ error with insert size file output
Answer: Help me with simple data for RNA seq
A: Most Popular and fancy SNP analysis tools Comparison: Plink, SNPassoc, SNPRelate
Most Popular and fancy SNP analysis tools Comparison: Plink, SNPassoc, SNPRelate
Recent Locations •
All
Turkey,
1 minute ago
Australia,
1 minute ago
Spain,
1 minute ago
India,
2 minutes ago
Hong Kong,
3 minutes ago
Seattle, WA USA,
3 minutes ago
Canada,
7 minutes ago
Recent Awards •
All
Popular Question
to
PBC
▴ 10
Popular Question
to
J.F.Jiang
▴ 920
Popular Question
to
devenvyas
▴ 740
Popular Question
to
schlogl
▴ 160
Commentator
to
Jeremy Leipzig
22k
Popular Question
to
Panos
★ 1.8k
Popular Question
to
gubrins
▴ 310
Recent Replies
Comment: Search within posts based on tags using the Biostars API
by
Bálint
▴ 10
Yep; I know about this option. However the problem here is that it will return only with the tags used and not the posts that are associate…
Answer: Salmon ~ Effective Length
by
Rob
6.6k
Salmon will compute the fragment length distribution based on the (probabilistically weighted) implied distance between the fragment ends g…
Comment: Error with Pheatmap ()
by
Ram
44k
Show us the output to ```r mat.z[1:10,1:10] any(is.infinite(mat.z)) ```
Answer: Search within posts based on tags using the Biostars API
by
Ram
44k
AFAIK there's a POST-based tag API but it has problems. I created an issue on GitHub a while ago on this topic: https://github.com/ialbert/…
Answer: Help with proteomics downstream analysis
by
Nat.Nataren
▴ 10
I would be contacting the company as a start, and getting access to your raw data.
Comment: txt file to bigwig
by
ATpoint
82k
Please stop asking questions in existing threads. Delete these two comments and open a new question with all the necessary details to under…
Comment: Venter Genome Vcf
by
Jeremy Leipzig
22k
there are some violations in this VCF: - Invalid count number, with fixed count the number should be 1 or higher: key=INFO name=TSA type=St…
Comment: Cut&Run and heatmap
by
sogand
• 0
Hi all, I am new to cut&run or any peak-related analysis and appreciate any guidance on my issue here: I have analyzed peakcalling .txt …
Comment: Functional enrichment analysis for unique gene IDs
by
Pegasus
▴ 100
Since the locus-tags are unclassified, I used the CDS instead of the locus-tags to retrive their ensembl IDs using ensembl bacteria website…
Comment: samtools mpileup error - 1 samples in 1 input files
by
Damla
• 0
Could you find a solution to your problem?
Comment: txt file to bigwig
by
sogand
• 0
Hi all, I am new to these kind of analysis and appreciate any guidance on my issue here: I have analyzed peakcalling .txt files that are r…
Answer: Help me with Heatmap
by
MolGeek
▴ 50
Hello! So, what is the correct design ? You will have to ask yourself, what do you want to compare? WT vs mut? If so it will be strain. 2…
Answer: Help me with simple data for RNA seq
by
swbarnes2
14k
1) you have to say what question you are actually asking. There are few different designs that would address different questions. 2) work…
Comment: identify the coordinate for coding and non_coding region.
by
Ghada
• 0
mmmm I am not sure. This is how I generate my consnsus sequence # Get consensus fastq file samtools mpileup -uf KT992094.1.fasta…
Comment: identify the coordinate for coding and non_coding region.
by
GenoMax
142k
Why do you have those N's at the beginning of the sequence? If the remainder of the sequence matches 100% then the initial N's may be wrong…
Traffic: 1444 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