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
412 results • Page
3 of 9
Sort: Views
Rank
Views
Votes
Replies
3
votes
3
replies
8.8k
views
Tutorial:
High Speed Downloading of SRA, SAM and Fastq Files
fastq
sam
Aspera-Connect
sra
updated 12 months ago by
Ram
43k • written 6.4 years ago by
Wenhu_Cao
▴ 100
20
votes
0
replies
8.8k
views
Tutorial:
Metagenomics Review Papers
metagenomics
papers
updated 14 months ago by
Ram
43k • written 11.7 years ago by
Istvan Albert
100k
9
votes
0
replies
8.7k
views
Tutorial:
Installing And Running Ncbi Blast
blast
updated 15 months ago by
Ram
43k • written 12.1 years ago by
MSU course 2011
▴ 540
81
votes
8
replies
8.6k
views
6 follow
Tutorial:
Current Topics in Genome Analysis 2014 (collection of educational lectures)
workshop
lectures
genomics
training
updated 14 months ago by
Ram
43k • written 9.9 years ago by
Malachi Griffith
20k
20
votes
4
replies
8.6k
views
Tutorial:
DE analysis by edgeR
RNA-Seq
R
edgeR
updated 13 months ago by
Ram
43k • written 7.7 years ago by
zizigolu
★ 4.3k
12
votes
5
replies
8.4k
views
Tutorial:
How To Install BioPerl Without Root Privileges in Ubuntu/Linxu
bioperl
updated 13 months ago by
Ram
43k • written 8.0 years ago by
Shicheng Guo
★ 9.4k
8
votes
7
replies
8.4k
views
Tutorial:
Getting Cegma/Genewise To Work On Centos, Rhel
centos
genewise
rhel
cegma
updated 2.3 years ago by
Ram
43k • written 10.5 years ago by
Adrian Pelin
★ 2.6k
14
votes
0
replies
8.4k
views
Tutorial:
Video: ChIP-Seq Analysis and Visualization using Galaxy and IGB.
IGB
ChIP-Seq
Galaxy
MACS
RNA-Seq
updated 2.1 years ago by
Ram
43k • written 9.3 years ago by
Nowlan Freese
▴ 860
16
votes
11
replies
8.3k
views
Tutorial:
How to Use Biostars, Part II: Post types, Deleting, (Un)Subscribing, Linking and Bookmarking
meta
how-to
documentation
14 months ago by
Ram
43k
20
votes
2
replies
8.1k
views
Tutorial:
Creating a karyotype plot with genes using karyoploteR
karyoploteR
visualization
R
genome
updated 12 months ago by
Ram
43k • written 6.5 years ago by
bernatgel
★ 3.4k
0
votes
0
replies
8.1k
views
Tutorial:
Multicollinearity VIF (Variance Inflation Factor) Analysis in Panel data EVIEWS 9
R
eviews
updated 12 months ago by
Ram
43k • written 6.3 years ago by
helgasaraswati
▴ 10
32
votes
4
replies
8.0k
views
Tutorial:
Fast LD computation from VCF files using tomahawk
ld
snp
vcf
vcftools
bcftools
updated 14 months ago by
Ram
43k • written 5.5 years ago by
firestar
★ 1.6k
42
votes
19
replies
7.9k
views
8 follow
Tutorial:
Designing Command-Line Interfaces (Clis) For Scientific Software
software
updated 14 months ago by
Ram
43k • written 11.2 years ago by
Daniel Standage
4.1k
12
votes
0
replies
7.9k
views
Tutorial:
Plot average methylation levels across TSS region
bedtools
RRBS
R
methylation
updated 2.1 years ago by
Ram
43k • written 9.3 years ago by
TriS
★ 4.7k
6
votes
1
reply
7.8k
views
Tutorial:
Expression Analysis Of Rna-Seq Experiments With Tophat And Cufflinks
tophat
RNA-seq
cufflinks
updated 15 months ago by
Ram
43k • written 12.0 years ago by
Istvan Albert
100k
26
votes
17
replies
7.8k
views
8 follow
Tutorial:
virtualenv - running Python based software in isolation
python
virtualenv
updated 20 months ago by
Ram
43k • written 9.8 years ago by
Ian
6.0k
24
votes
4
replies
7.7k
views
Tutorial:
Using EnrichedHeatmap for visualization of NGS experiments
heatmap
chip-seq
atac-seq
EnrichedHeatmap
updated 14 months ago by
Ram
43k • written 4.7 years ago by
ATpoint
82k
12
votes
11
replies
7.6k
views
Tutorial:
How to upload your RNA-Seq data to NCBI Sequence Read Archive (SRA)
NCBI
Bioproject
SRA
BioSample
updated 12 months ago by
Ram
43k • written 7.2 years ago by
CandiceChuDVM
★ 2.4k
6
votes
4
replies
7.5k
views
Tutorial:
Overlay Multiple Tracks In Ucsc Browser [Quick Minimal Tutorial]
visualization
ChIP-seq
RNA-seq
ucsc-genome-browser
bigwig
updated 14 months ago by
Ram
43k • written 11.2 years ago by
Sukhi Singh
11k
60
votes
2
replies
7.4k
views
Tutorial:
Table Of Contents To All Review Paper Compilations On Biostar
papers
updated 14 months ago by
Ram
43k • written 11.7 years ago by
Istvan Albert
100k
64
votes
5
replies
7.3k
views
10 follow
Tutorial:
Informatics of RNA-Seq.
next-gen
RNA-Seq
updated 19 months ago by
Ram
43k • written 8.8 years ago by
GouthamAtla
12k
4
votes
2
replies
7.2k
views
Tutorial:
Analyzing Genomewide Association Study Data: A Tutorial Using Plink
plink
gwas
updated 15 months ago by
Ram
43k • written 12.0 years ago by
Istvan Albert
100k
15
votes
1
reply
7.2k
views
Tutorial:
A compilation of conversion tools for BED, SAM/BAM, psl, pslx, blast tabular and blast xml
psl
SAM
blast
BED
updated 12 months ago by
Ram
43k • written 6.5 years ago by
Joseph Hughes
★ 3.0k
16
votes
9
replies
7.1k
views
Tutorial:
TCGA transcriptome data to R (DESeq2)
TCGA
GDC
DESeq2
updated 23 months ago by
dk0319
▴ 70 • written 2.4 years ago by
Barry Digby
★ 1.3k
22
votes
10
replies
7.1k
views
Tutorial:
Finding the significance of the overlap between 2 or more gene sets using simulation in R.
tidyverse
gene
R
updated 14 months ago by
Ram
43k • written 3.7 years ago by
rpolicastro
13k
6
votes
5
replies
7.0k
views
Tutorial:
use firehose_get to download TCGA data
tcga
RNA-Seq
updated 12 months ago by
Ram
43k • written 6.5 years ago by
jmzeng1314
▴ 140
23
votes
19
replies
6.9k
views
10 follow
Tutorial:
MutScan: Detect important mutations by scanning FastQ files directly
fastq
mutation
cancer
target
updated 13 months ago by
Ram
43k • written 7.6 years ago by
chen
★ 2.5k
2
votes
0
replies
6.9k
views
Tutorial:
How to - Install Python packages in a virtual environment (virtualenv)
ubuntu
cutadapt
virtualenv
python
windows
updated 12 months ago by
Ram
43k • written 6.4 years ago by
vimalkvn
▴ 320
11
votes
0
replies
6.9k
views
Tutorial:
Yes .. BBMap can do that! - Part II randomreads (read simulation), demuxbyname/filterbyname, bbsplit (read binning/decontamination) and pileup (cover…
bbmap
updated 14 months ago by
Ram
43k • written 3.3 years ago by
GenoMax
142k
15
votes
2
replies
6.9k
views
Tutorial:
Genotype And Snp Calling Review Papers
snp
updated 14 months ago by
Ram
43k • written 11.7 years ago by
Istvan Albert
100k
14
votes
31
replies
6.9k
views
6 follow
Tutorial:
gene set filter/selection for training ab initio annotation tools
geneset
genome
gene
abinitio
updated 14 months ago by
Ram
43k • written 4.8 years ago by
Juke34
8.6k
21
votes
5
replies
6.8k
views
Tutorial:
Analysis of single-cell RNA-seq data
single-cell
RNA-Seq
updated 13 months ago by
Ram
43k • written 7.9 years ago by
Geparada
★ 1.5k
8
votes
12
replies
6.8k
views
Tutorial:
Create your own VPN to access work resources from home
tinyproxy
OpenVPN
VPN
updated 13 months ago by
Ram
43k • written 8.0 years ago by
John
13k
17
votes
0
replies
6.6k
views
Tutorial:
Introduction To Ngs Bioinformatics By The Bioinformatics Team At The University Of Texas
course
training
updated 15 months ago by
Ram
43k • written 11.9 years ago by
Istvan Albert
100k
19
votes
7
replies
6.6k
views
Tutorial:
scRNA-seq CITE-seq-count bioinformatics
CITE-seq-count
scRNA-seq
RNA-Seq
updated 10 months ago by
ATpoint
82k • written 4.1 years ago by
colindaven
6.4k
8
votes
2
replies
6.6k
views
Tutorial:
Troubleshooting issues with SURPI pipeline for pathogen identification from complex metagenomic NGS data.
metagenomics
clinical-genomics
updated 2.3 years ago by
Ram
43k • written 9.5 years ago by
GouthamAtla
12k
21
votes
9
replies
6.6k
views
8 follow
Tutorial:
Interactive Perl Learning
perl
updated 14 months ago by
Ram
43k • written 10.9 years ago by
Medhat
9.7k
34
votes
15
replies
6.5k
views
6 follow
Tutorial:
How to do data cleaning for VCF genetic file
vcf
updated 14 months ago by
Ram
43k • written 4.9 years ago by
Shicheng Guo
★ 9.4k
15
votes
7
replies
6.5k
views
Tutorial:
Visualization of ChIP-Seq peak overlaps using HOMER mergePeaks and UpSetR
ChIP-Seq
peaks
R
HOMER
updated 14 months ago by
Ram
43k • written 8.0 years ago by
steve
★ 3.5k
14
votes
2
replies
6.5k
views
Tutorial:
ChIP-seq analysis tutorial
ChIP-Seq
updated 13 months ago by
Ram
43k • written 8.7 years ago by
Ming Tommy Tang
★ 3.9k
16
votes
6
replies
6.5k
views
Tutorial:
How to make your snakefiles self-documenting
snakemake
updated 13 months ago by
Ram
43k • written 7.5 years ago by
Botond Sipos
★ 1.7k
6
votes
0
replies
6.4k
views
Tutorial:
Leveraging Flow Order And Flow Signals From Ion Torrent Data
ion-torrent
updated 15 months ago by
Ram
43k • written 12.0 years ago by
Biostar User
▴ 360
20
votes
7
replies
6.4k
views
Tutorial:
Showing up and down regulated GO and pathway using enrichR and ggplot2
ggplot2
RNA-Seq
R
updated 14 months ago by
Ram
43k • written 5.6 years ago by
ahmad mousavi
▴ 800
29
votes
5
replies
6.4k
views
Tutorial:
Gnu Parallel Tutorial
parallel
gnu-parallel
updated 14 months ago by
Ram
43k • written 10.7 years ago by
ole.tange
★ 4.4k
13
votes
7
replies
6.3k
views
Tutorial:
STARsolo config for 10x Chromium v1, v2, v3
Chromium
10x
STARsolo
STAR
updated 14 months ago by
Ram
43k • written 3.6 years ago by
Kevin Blighe
88k
37
votes
5
replies
6.1k
views
Tutorial:
[Beginner] Introduction to bioinformatics file types
fastq
fasta
bed
SAM
updated 8 months ago by
gallardodiazmiriam
▴ 20 • written 8.8 years ago by
Luke Crichton
▴ 430
4
votes
1
reply
6.1k
views
Tutorial:
Chip-Seq Data Analysis Tutorial
chip-seq
updated 15 months ago by
Ram
43k • written 12.0 years ago by
Biostar User
▴ 360
22
votes
2
replies
6.0k
views
Tutorial:
Use a workflow management tool to manage your computational pipelines
workflow-management
snakemake
pipeline
updated 13 months ago by
Ram
43k • written 7.5 years ago by
Eric Lim
★ 2.1k
13
votes
6
replies
6.0k
views
Tutorial:
Trim & align paired-end reads in a single pass
align
trim
fastq
pipe
paired-end
updated 13 months ago by
Ram
43k • written 7.9 years ago by
dariober
14k
18
votes
2
replies
5.9k
views
Tutorial:
Update kraken databases
database
kraken
k-mer
python
updated 12 months ago by
Ram
43k • written 7.0 years ago by
Sej Modha
5.3k
412 results • Page
3 of 9
Recent Votes
Comment: Can 5' and 3' scRNAseq be processed with the same pipeline?
Answer: Concatenate multiple paired-end reads or interleaved which is best approach to a
Scale total height phylogenetic tree
Scale total height phylogenetic tree
Comment: finding evidence(s) of a peptide translated from an "Upstream Open Reading Frame
Answer: Would you bother re-mapping RNA-seq data from an old GRCh38 build to a newer ver
Answer: finding evidence(s) of a peptide translated from an "Upstream Open Reading Frame
Recent Locations •
All
Belgium,
just now
Greece,
1 minute ago
Croatia,
2 minutes ago
United States,
4 minutes ago
Singapore,
4 minutes ago
United States,
5 minutes ago
Spain,
5 minutes ago
Recent Awards •
All
Scholar
to
GenoMax
142k
Popular Question
to
ben@f
▴ 10
Popular Question
to
Jalil Sharif
▴ 80
Popular Question
to
biology_inform
▴ 50
Scholar
to
nd48
▴ 20
Teacher
to
aw7
▴ 300
Supporter
to
thereallbaker
• 0
Recent Replies
Comment: Can 5' and 3' scRNAseq be processed with the same pipeline?
by
ev97
▴ 20
Thanks very much for your feedback! I will take all those things in consideration once I start the analysis! Just out of curiosity, do yo…
Answer: getting exon coordinates
by
ben@f
▴ 10
A combination of bash and awk can do the work, suppose you have the gff file annotation of your gene of interest and a text file with Gene…
Comment: getting exon coordinates
by
Pierre Lindenbaum
161k
https://www.biostars.org/p/385786/ ; <br> https://www.biostars.org/p/276608/ ; <br> https://www.biostars.org/p/411934/ ;etc... <!-- How …
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences?
by
GenoMax
142k
I would have thought `needle` from EMBOSS would be the option to use.
Comment: In one PCA plot, can I calculate the percentage of different factors that contri
by
marco.barr
▴ 120
ok, then you should add the donor information to the PCA analysis. First create a separate dataframe for the donors, then add with `factor`…
Answer: Faster Needleman-Wunsch rapid global alignment of two sequences?
by
b.contreras.moreira
▴ 180
If you are willing to do some coding I think <https://github.com/smarco/WFA2-lib> is among the fastest global aligners, the repo has C++ ex…
Comment: finding evidence(s) of a peptide translated from an "Upstream Open Reading Frame
by
GenoMax
142k
There is an API that you could try: https://www.ebi.ac.uk/pride/markdownpage/prideutilities
Comment: finding evidence(s) of a peptide translated from an "Upstream Open Reading Frame
by
Pierre Lindenbaum
161k
thanks. looks interesting but it's broken. the Firefox console shows a 404 for https://www.ebi.ac.uk/pride/ws/archive/v2/peptidesummary?ke…
Answer: finding evidence(s) of a peptide translated from an "Upstream Open Reading Frame
by
GenoMax
142k
Perhaps: https://www.ebi.ac.uk/pride/peptidome/ This site is very slow. Almost to the point of being not usable. My search with your pepti…
Comment: Can I perform a correlation test with 3 biological replicates per condition?
by
ATpoint
82k
You're welcome. Yes, unfortunately you need quite a sample size for WGCNA simply because correlations with few samples are vastly underpowe…
Comment: Can I perform a correlation test with 3 biological replicates per condition?
by
manuelmourato25
• 0
Ah, I see. So seen that what I want is the per-gene correlation, the minimum of 20/25 for the pearson correlation still applies. Thank you …
Answer: Can I perform a correlation test with 3 biological replicates per condition?
by
ATpoint
82k
I think you're misunderstanding some concepts here. WGCNA is a framework that defines modules based on how and which genes are correlated …
Comment: Would you bother re-mapping RNA-seq data from an old GRCh38 build to a newer ver
by
GenoMax
142k
> most up-to-date build Major build of the genome remains GRCh38. What you are looking at is the latest patch release for that build. Only…
Comment: Can I perform a correlation test with 3 biological replicates per condition?
by
manuelmourato25
• 0
Thank you @atpoint . My apologies, maybe I should rephrase the question. I read the WGCNA docs already, and for the Pearson correlation tes…
Comment: How to extract cells of different species after mapping with combined genome?
by
GenoMax
142k
Can you confirm that this answer is specific for `singleron` technology and associated bioinformatics software.
Traffic: 2785 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