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182 results • Page
1 of 4
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Views
Votes
Replies
239
votes
176
replies
94k
views
73 follow
Tutorial:
Survival analysis of TCGA patients integrating gene expression (RNASeq) data
RNA-Seq
Survival
TCGA
updated 10 months ago by
Ram
43k • written 8.7 years ago by
TriS
★ 4.7k
93
votes
23
replies
90k
views
15 follow
Tutorial:
How to Install SamTools, HTSLib, and BCFTools on Ubuntu 18.04
bcftools
samtools
htslib
updated 10 weeks ago by
clara.apicella
• 0 • written 5.7 years ago by
otwtgin2010
▴ 610
0
votes
3
replies
52k
views
Tutorial:
Installation VMD on LINUX_64
gromacs
VMD
updated 11 months ago by
Ram
43k • written 7.8 years ago by
Hassan Rasouli
▴ 10
149
votes
70
replies
50k
views
20 follow
Tutorial:
Network plot from expression data in R using igraph
microarray
RNA-Seq
R
network
updated 7 months ago by
Raheleh
▴ 260 • written 6.4 years ago by
Kevin Blighe
87k
39
votes
16
replies
36k
views
16 follow
Tutorial:
installing samtools with conda - overcoming two common errors
samtools
conda
updated 3 months ago by
GenoMax
140k • written 3.6 years ago by
lavinia.gordon
▴ 160
90
votes
48
replies
33k
views
29 follow
Tutorial:
Extract Total Non-Overlapping Exon Length Per Gene With Bioconductor
fpkm
rna-seq
bioconductor
updated 4 months ago by
Ram
43k • written 10.5 years ago by
Irsan
★ 7.8k
84
votes
29
replies
32k
views
20 follow
Tutorial:
How to create a mutation landscape (waterfall) plot with GenVisR
BioConductor
GenVisR
Graphics
R
updated 8 months ago by
amziepickles
• 0 • written 8.1 years ago by
Obi Griffith
20k
99
votes
8
replies
29k
views
8 follow
Tutorial:
Guide to TCGA data
cancer
RNA-Seq
clinical
TCGA
updated 11 months ago by
Ram
43k • written 8.1 years ago by
Jordan Anaya
★ 1.1k
73
votes
27
replies
27k
views
16 follow
Tutorial:
How To Separate Illumina Based Strand Specific Rna-Seq Alignments By Strand
RNA-seq
updated 3 months ago by
snardeli
• 0 • written 10.1 years ago by
Istvan Albert
100k
34
votes
16
replies
20k
views
14 follow
Tutorial:
TCGA UUIDS to TCGA barcode (SampleID) in R
next-gen
GDC
R
TCGA
updated 10 days ago by
aUser
▴ 30 • written 7.5 years ago by
martinguerrerog89
▴ 310
39
votes
6
replies
19k
views
Tutorial:
Creating chromosome karyotype plot with R and ggplot2
ggplot2
R
chromosome
karyotype
updated 10 months ago by
Ram
43k • written 6.6 years ago by
steve
★ 3.5k
14
votes
3
replies
19k
views
Tutorial:
Plotting the coverage and depth (Y-axis) statistics of a bam file along the genome (X-axis), using Samtools, awk and R.
genome
plot
coverage
samtools
updated 7 months ago by
William
▴ 30 • written 7.0 years ago by
kirannbishwa01
★ 1.6k
83
votes
34
replies
18k
views
22 follow
Tutorial:
Enrichment Analysis, Clustering and Scoring with pathfindR
enrichment
R
pathway
active-subnetwork
updated 10 months ago by
adelheidkratzer
• 0 • written 5.8 years ago by
egeulgen
★ 1.3k
35
votes
17
replies
16k
views
12 follow
Tutorial:
Machine Learning For Cancer Classification - Part 3 - Predicting With A Random Forest Classifier
machine-learning
classification
updated 11 months ago by
GenoMax
140k • written 10.4 years ago by
Obi Griffith
20k
15
votes
5
replies
15k
views
Tutorial:
How to create a mutation lolliplot with GenVisR
bioconductor
graphics
R
genvisr
updated 11 months ago by
Ram
43k • written 7.8 years ago by
Obi Griffith
20k
70
votes
29
replies
15k
views
13 follow
Tutorial:
Generating consensus sequence from bam file
fasta
consensus
bam
updated 15 days ago by
jkbonfield
★ 1.2k • written 5.1 years ago by
finswimmer
16k
65
votes
15
replies
14k
views
Tutorial:
Which human reference genome should I use?
assembly
genome
alignment
updated 10 months ago by
Ram
43k • written 5.5 years ago by
finswimmer
16k
46
votes
13
replies
14k
views
13 follow
Tutorial:
Methylation Analysis Tutorial in R - Part 1
R
cancer
methylation
updated 17 days ago by
Konstantinos
• 0 • written 3.5 years ago by
Hamid Ghaedi
3.2k
11
votes
7
replies
14k
views
Tutorial:
Removing rows with duplicate values based on 1 or more key values - linux awk
awk
linux
bash
updated 10 months ago by
Ram
43k • written 6.6 years ago by
Kevin Blighe
87k
44
votes
3
replies
13k
views
Tutorial:
A Wet-Lab Guide to 'what I wish I had known' for Computational Biology
bioinformatics
computational-biology
updated 11 months ago by
Ram
43k • written 8.0 years ago by
Sinji
★ 3.2k
7
votes
13
replies
13k
views
Tutorial:
Merging multiple vcf files into Single vcf file
vcf
bcftools
updated 9 months ago by
Ram
43k • written 5.1 years ago by
jaybee
▴ 170
11
votes
7
replies
11k
views
Tutorial:
ClusterProfiler A software for functional enrichment of differentially expressed genes- A tutorial
clusterProfiler
Software
rna-seq
updated 10 months ago by
Ram
43k • written 3.1 years ago by
Novogene
▴ 410
49
votes
30
replies
11k
views
13 follow
Tutorial:
How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
documentation
meta
how-to
updated 1 day ago by
Istvan Albert
100k • written 8.1 years ago by
Ram
43k
10
votes
31
replies
11k
views
10 follow
Tutorial:
OrthoMCL installation on Ubuntu Linux
ubuntu
orthomcl
mysql
linux
updated 5 months ago by
ha2606
• 0 • written 6.2 years ago by
vimalkvn
▴ 320
19
votes
13
replies
9.8k
views
10 follow
Tutorial:
Setting up Aspera Connect (ascp) on Linux and macOS
ascp
aspera
updated 4 months ago by
jude
• 0 • written 21 months ago by
ATpoint
81k
14
votes
0
replies
9.5k
views
Tutorial:
How to generate PCA plot and heatmaps in R
heatmap
PCA
RNA-Seq
R
updated 11 months ago by
Ram
43k • written 7.5 years ago by
Ming Tommy Tang
★ 3.9k
21
votes
26
replies
9.4k
views
11 follow
Tutorial:
Create de novo repeat library
de-novo
repeat
annotation
updated 15 days ago by
Yao
▴ 30 • written 4.3 years ago by
Juke34
8.5k
10
votes
1
reply
9.2k
views
Tutorial:
How to select reads with specific flag using samtools
next-gen-sequencing
updated 10 months ago by
Ram
43k • written 6.6 years ago by
imlituan
▴ 110
3
votes
2
replies
8.7k
views
Tutorial:
Use fastp to preprocess FASTQ data with unique molecular identifer (UMI) integrated
FASTQ
UMI
fastp
updated 10 months ago by
Ram
43k • written 6.3 years ago by
chen
★ 2.5k
3
votes
3
replies
8.7k
views
Tutorial:
High Speed Downloading of SRA, SAM and Fastq Files
fastq
sam
Aspera-Connect
sra
updated 10 months ago by
Ram
43k • written 6.3 years ago by
Wenhu_Cao
▴ 100
20
votes
4
replies
8.6k
views
Tutorial:
DE analysis by edgeR
RNA-Seq
R
edgeR
updated 11 months ago by
Ram
43k • written 7.5 years ago by
zizigolu
★ 4.3k
12
votes
5
replies
8.3k
views
Tutorial:
How To Install BioPerl Without Root Privileges in Ubuntu/Linxu
bioperl
updated 11 months ago by
Ram
43k • written 7.8 years ago by
Shicheng Guo
★ 9.4k
0
votes
0
replies
8.0k
views
Tutorial:
Multicollinearity VIF (Variance Inflation Factor) Analysis in Panel data EVIEWS 9
R
eviews
updated 10 months ago by
Ram
43k • written 6.2 years ago by
helgasaraswati
▴ 10
20
votes
2
replies
8.0k
views
Tutorial:
Creating a karyotype plot with genes using karyoploteR
karyoploteR
visualization
R
genome
updated 10 months ago by
Ram
43k • written 6.4 years ago by
bernatgel
★ 3.4k
12
votes
11
replies
7.4k
views
Tutorial:
How to upload your RNA-Seq data to NCBI Sequence Read Archive (SRA)
NCBI
Bioproject
SRA
BioSample
updated 10 months ago by
Ram
43k • written 7.1 years ago by
CandiceChuDVM
★ 2.4k
15
votes
1
reply
7.1k
views
Tutorial:
A compilation of conversion tools for BED, SAM/BAM, psl, pslx, blast tabular and blast xml
psl
SAM
blast
BED
updated 10 months ago by
Ram
43k • written 6.4 years ago by
Joseph Hughes
★ 3.0k
5
votes
5
replies
6.9k
views
Tutorial:
use firehose_get to download TCGA data
tcga
RNA-Seq
updated 10 months ago by
Ram
43k • written 6.4 years ago by
jmzeng1314
▴ 130
2
votes
0
replies
6.8k
views
Tutorial:
How to - Install Python packages in a virtual environment (virtualenv)
ubuntu
cutadapt
virtualenv
python
windows
updated 10 months ago by
Ram
43k • written 6.3 years ago by
vimalkvn
▴ 320
23
votes
19
replies
6.8k
views
10 follow
Tutorial:
MutScan: Detect important mutations by scanning FastQ files directly
fastq
mutation
cancer
target
updated 11 months ago by
Ram
43k • written 7.5 years ago by
chen
★ 2.5k
21
votes
5
replies
6.7k
views
Tutorial:
Analysis of single-cell RNA-seq data
single-cell
RNA-Seq
updated 11 months ago by
Ram
43k • written 7.8 years ago by
Geparada
★ 1.5k
8
votes
12
replies
6.7k
views
Tutorial:
Create your own VPN to access work resources from home
tinyproxy
OpenVPN
VPN
updated 11 months ago by
Ram
43k • written 7.8 years ago by
John
13k
19
votes
7
replies
6.4k
views
Tutorial:
scRNA-seq CITE-seq-count bioinformatics
CITE-seq-count
scRNA-seq
RNA-Seq
updated 8 months ago by
ATpoint
81k • written 4.0 years ago by
colindaven
6.3k
14
votes
2
replies
6.4k
views
Tutorial:
ChIP-seq analysis tutorial
ChIP-Seq
updated 12 months ago by
Ram
43k • written 8.6 years ago by
Ming Tommy Tang
★ 3.9k
16
votes
6
replies
6.4k
views
Tutorial:
How to make your snakefiles self-documenting
snakemake
updated 11 months ago by
Ram
43k • written 7.4 years ago by
Botond Sipos
★ 1.7k
36
votes
5
replies
6.0k
views
Tutorial:
[Beginner] Introduction to bioinformatics file types
fastq
fasta
bed
SAM
updated 6 months ago by
gallardodiazmiriam
▴ 20 • written 8.7 years ago by
Luke Crichton
▴ 410
22
votes
2
replies
6.0k
views
Tutorial:
Use a workflow management tool to manage your computational pipelines
workflow-management
snakemake
pipeline
updated 11 months ago by
Ram
43k • written 7.4 years ago by
Eric Lim
★ 2.1k
13
votes
6
replies
5.9k
views
Tutorial:
Trim & align paired-end reads in a single pass
align
trim
fastq
pipe
paired-end
updated 11 months ago by
Ram
43k • written 7.8 years ago by
dariober
14k
18
votes
2
replies
5.9k
views
Tutorial:
Update kraken databases
database
kraken
k-mer
python
updated 10 months ago by
Ram
43k • written 6.9 years ago by
Sej Modha
5.3k
9
votes
2
replies
5.4k
views
Tutorial:
From Data import to Normalization in Microarray Analysis using in R (Part I)
gene
R
updated 11 months ago by
Ram
43k • written 7.8 years ago by
majuang66
▴ 140
9
votes
4
replies
5.3k
views
Tutorial:
Unsupervised clustering on gene expression data
gene-expression
clustering
RNA-seq
7 months ago by
Hamid Ghaedi
3.2k
182 results • Page
1 of 4
Recent Votes
The Biostar Handbook. A bioinformatics e-book for beginners.
Comment: Announcement: Research Topic "Mechanistic, Machine Learning and Hybrid Models of
Comment: Announcement: Research Topic "Mechanistic, Machine Learning and Hybrid Models of
Answer: Interproscan taking so much time
Comment: Number of CPUs to use by DRAP for transcriptomic assmbly
Answer: Is RNAseq data from a monoclonal cell line technically considered scRNAseq?
F*up Night style events for Bioinformatics ? Comment if you're interested!
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Comment: Announcement: Research Topic "Mechanistic, Machine Learning and Hybrid Models of
by
Johannes W. Dietrich
• 0
You are right, the deadline is a bit short. I have successfully managed two other Research Topics, but we had to extend the deadlines for b…
Comment: DESeq2 and normalization
by
dsull
★ 5.7k
The `DESeq` command already does the necessary work that you'll need for your analysis (including normalization); it gets you your log2Fold…
Comment: Number of CPUs to use by DRAP for transcriptomic assmbly
by
Mohamed Abderrahmane
▴ 10
Ah ok, I can see now, thanks, have a good day!
Comment: Error running local blastn in R using system2
by
Harrison
• 0
Also, `nt_euk.nal` is just one file. There are other `nt_euk` files in my directory with different extensions (`.ndb`, `.nos`, `.not`, `.nt…
Comment: Error running local blastn in R using system2
by
Harrison
• 0
Yes, in my actual script I use the whole path to nt_euk. I was just showing `C:/data/nt_euk` as shorthand for the full path. There are no s…
Comment: Error running local blastn in R using system2
by
Harrison
• 0
I am seeing `'cat' is not recognized as an internal or external command, operable program or batch file.`
Comment: Alignment with new reference
by
GenoMax
140k
> I'd like to realign my sequences to a reference that doesn't include > the base segment corresponding to the enzyme interval. How can I >…
Comment: How do I get the gene annotations as a text file from a genebank file?
by
GenoMax
140k
You will have to use a programming approach. BioPython is one option: https://warwick.ac.uk/fac/sci/moac/people/students/peter_cock/python/…
Comment: Number of CPUs to use by DRAP for transcriptomic assmbly
by
GenoMax
140k
> Is it because implementing multi-threading requires additional effort on their part Yes but in addition considerations here are importan…
Comment: F*up Night style events for Bioinformatics ? Comment if you're interested!
by
Madelaine Gogol
5.3k
That sounds fun, and I've got some of these that I have told many people about (to keep them from making the same mistakes as me). I am pla…
Comment: Mapping ortholog human and mouse transcript
by
1769mkc
★ 1.2k
for hgnc and ensembl that can be done for transcript id for human to mouse ortholog its difficult to parse and map the exact version from g…
Comment: Announcement: Research Topic "Mechanistic, Machine Learning and Hybrid Models of
by
Mensur Dlakic
★ 26k
Take it from someone who has hosted both a successful and a failed research topic: these deadlines are unrealistic. I am guessing you are p…
Answer: Tissue specific mRNA expression dataset in human and mouse
by
BioinfGuru
★ 1.6k
Awesome, years ago I wrote my thesis on the use of Tau to calculate tissue specificity, enjoy! The supplementary materials in the paper is…
Answer: Mapping ortholog human and mouse transcript
by
BioinfGuru
★ 1.6k
That error is on the server side, nothing to do with you, and is very common. Usually the fix is to try again in an hour, or to insert host…
Comment: Nanopore multisample variant calling
by
emilydolivo97
• 0
hello @colindaven , Did you find a suitable tool for this purpose please ? I'm dealing with fungal dataset
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