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
385 results • Page
1 of 8
Sort: replies
Rank
Views
Votes
Replies
238
votes
176
replies
90k
views
73 follow
Tutorial:
Survival analysis of TCGA patients integrating gene expression (RNASeq) data
RNA-Seq
Survival
TCGA
updated 6 months ago by
Ram
41k • written 8.4 years ago by
TriS
★ 4.7k
132
votes
123
replies
35k
views
23 follow
Tutorial:
Survival analysis with gene expression
cox
gene-expression
survival-analysis
geo
updated 8 months ago by
1769mkc
★ 1.1k • written 5.1 years ago by
Kevin Blighe
86k
95
votes
105
replies
41k
views
25 follow
Tutorial:
Produce PCA bi-plot for 1000 Genomes Phase III - Version 2
1000genomes
PLINK
PCA
updated 9 months ago by
Ram
41k • written 5.3 years ago by
Kevin Blighe
86k
76
votes
70
replies
18k
views
18 follow
Tutorial:
Clustering of DAVID gene enrichment results from gene expression studies
enrichment
david
updated 9 months ago by
Ram
41k • written 5.8 years ago by
Kevin Blighe
86k
148
votes
70
replies
48k
views
20 follow
Tutorial:
Network plot from expression data in R using igraph
microarray
RNA-Seq
R
network
updated 3 months ago by
Raheleh
▴ 260 • written 6.1 years ago by
Kevin Blighe
86k
117
votes
66
replies
44k
views
20 follow
Tutorial:
[Deprecated] Fast download of FASTQ files from the European Nucleotide Archive (ENA)
aspera
fastq-dump
Fastq
ENA
updated 9 months ago by
Ram
41k • written 5.4 years ago by
ATpoint
78k
73
votes
60
replies
26k
views
16 follow
Tutorial:
Produce PCA bi-plot for 1000 Genomes Phase III in VCF format (old)
1000genomes
PLINK
PCA
VCF
updated 10 months ago by
Ram
41k • written 6.3 years ago by
Kevin Blighe
86k
60
votes
52
replies
42k
views
23 follow
Tutorial:
Creating Interactive Volcano Plots with R and Plot.ly
plotly
R
volcano-plot
updated 9 months ago by
Ram
41k • written 7.2 years ago by
steve
★ 3.4k
72
votes
48
replies
17k
views
15 follow
Tutorial:
For Short Reads, Which Aligners Find All Hits Given Certain Edit Distance Threshold?
ngs
alignment
bwa
updated 9 months ago by
Ram
41k • written 10.8 years ago by
lh3
33k
90
votes
48
replies
31k
views
29 follow
Tutorial:
Extract Total Non-Overlapping Exon Length Per Gene With Bioconductor
fpkm
rna-seq
bioconductor
updated 5 weeks ago by
Ram
41k • written 10.2 years ago by
Irsan
★ 7.8k
196
votes
44
replies
70k
views
33 follow
Tutorial:
Analysing Microarray Data In Bioconductor
microarray-analysis
bioconductor
updated 11 months ago by
Ram
41k • written 11.2 years ago by
Obi Griffith
20k
59
votes
43
replies
20k
views
18 follow
Tutorial:
Polish PacBio assembly with latest PacBio tools : an affordable solution for everyone
pbalign
pacbio
arrow
smrt-limk
updated 9 months ago by
Ram
41k • written 6.2 years ago by
Rox
★ 1.4k
18
votes
40
replies
17k
views
16 follow
Tutorial:
Easy way to run easily orthoMCL (Copy & paste)
all-v-all
orthomcl
updated 3.4 years ago by
krishdb38
• 0 • written 7.5 years ago by
Esaie
▴ 170
282
votes
39
replies
177k
views
29 follow
Tutorial:
How to download raw sequence data from GEO/SRA
fastq
SRA
bam
GEO
updated 8 months ago by
Ram
41k • written 9.3 years ago by
Obi Griffith
20k
149
votes
35
replies
61k
views
33 follow
Tutorial:
Tools For Metagenomic Data Analysis
metagenomics
next-gen
updated 9 months ago by
Ram
41k • written 11.0 years ago by
vijay
★ 1.6k
147
votes
34
replies
53k
views
17 follow
Tutorial:
Working with MAF files (Mutation Annotation Format) from the TCGA (The Cancer Genome Atlas)
music
cancer
tcga
mutation
maf
updated 9 months ago by
Ram
41k • written 10.7 years ago by
Cyriac Kandoth
6.0k
83
votes
34
replies
17k
views
22 follow
Tutorial:
Enrichment Analysis, Clustering and Scoring with pathfindR
enrichment
R
pathway
active-subnetwork
updated 6 months ago by
adelheidkratzer
• 0 • written 5.5 years ago by
egeulgen
★ 1.3k
290
votes
33
replies
102k
views
25 follow
Tutorial:
Cheat Sheet For One-Based Vs Zero-Based Coordinate Systems
coordinates
updated 9 months ago by
Ram
41k • written 10.1 years ago by
Obi Griffith
20k
14
votes
31
replies
6.1k
views
6 follow
Tutorial:
gene set filter/selection for training ab initio annotation tools
geneset
genome
gene
abinitio
updated 9 months ago by
Ram
41k • written 4.3 years ago by
Juke34
8.4k
10
votes
31
replies
10.0k
views
10 follow
Tutorial:
OrthoMCL installation on Ubuntu Linux
ubuntu
orthomcl
mysql
linux
updated 6 weeks ago by
ha2606
• 0 • written 5.9 years ago by
vimalkvn
▴ 320
48
votes
30
replies
9.4k
views
11 follow
Tutorial:
How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
documentation
meta
how-to
updated 5 weeks ago by
ATpoint
78k • written 7.8 years ago by
Ram
41k
84
votes
29
replies
30k
views
20 follow
Tutorial:
How to create a mutation landscape (waterfall) plot with GenVisR
BioConductor
GenVisR
Graphics
R
updated 4 months ago by
amziepickles
• 0 • written 7.8 years ago by
Obi Griffith
20k
72
votes
27
replies
27k
views
16 follow
Tutorial:
How To Separate Illumina Based Strand Specific Rna-Seq Alignments By Strand
RNA-seq
updated 7 days ago by
snardeli
• 0 • written 9.8 years ago by
Istvan Albert
99k
64
votes
26
replies
13k
views
7 follow
Tutorial:
Parallel processing in R
biocparallel
mclapply
foreach
R
updated 9 months ago by
Ram
41k • written 6.2 years ago by
Kevin Blighe
86k
65
votes
26
replies
13k
views
11 follow
Tutorial:
Generating consensus sequence from bam file
fasta
consensus
bam
updated 9 months ago by
Ram
41k • written 4.8 years ago by
finswimmer
16k
95
votes
25
replies
32k
views
11 follow
Tutorial:
Fastq Quality Control Shootout
quality
qc
trimming
fastq
updated 9 months ago by
Ram
41k • written 11.2 years ago by
Istvan Albert
99k
58
votes
25
replies
39k
views
15 follow
Tutorial:
Protocol To Downlad TCGA Data From GDC
GDC
methylation
TCGA
updated 8 months ago by
Ram
41k • written 7.4 years ago by
Shicheng Guo
★ 9.3k
137
votes
25
replies
81k
views
14 follow
Tutorial:
Piping With Samtools, Bwa And Bedtools
unix
samtools
bwa
bedtools
updated 20 months ago by
Ram
41k • written 11.6 years ago by
Ying W
★ 4.2k
88
votes
22
replies
84k
views
14 follow
Tutorial:
How to Install SamTools, HTSLib, and BCFTools on Ubuntu 18.04
bcftools
samtools
htslib
updated 5 months ago by
sifa.khan
• 0 • written 5.4 years ago by
otwtgin2010
▴ 580
18
votes
22
replies
8.5k
views
10 follow
Tutorial:
Create de novo repeat library
de-novo
repeat
annotation
updated 11 weeks ago by
evoecogen
▴ 20 • written 4.0 years ago by
Juke34
8.4k
142
votes
21
replies
30k
views
12 follow
Tutorial:
A few words for R beginners
Swirl
R
updated 19 months ago by
Ram
41k • written 9.0 years ago by
Parham
★ 1.6k
84
votes
21
replies
20k
views
16 follow
Tutorial:
Gene Set Enrichment Analysis
microarray
enrichment
RNA-Seq
GSEA
updated 9 months ago by
Ram
41k • written 3.2 years ago by
Hamid Ghaedi
3.1k
12
votes
20
replies
13k
views
10 follow
Tutorial:
Associating VDJ clonotyping data with scRNA-seq in Seurat
single-cell
RNA-Seq
seurat
TCR
updated 9 months ago by
Ram
41k • written 4.5 years ago by
jared.andrews07
★ 16k
23
votes
19
replies
6.4k
views
10 follow
Tutorial:
MutScan: Detect important mutations by scanning FastQ files directly
fastq
mutation
cancer
target
updated 8 months ago by
Ram
41k • written 7.2 years ago by
chen
★ 2.5k
90
votes
19
replies
31k
views
12 follow
Tutorial:
Machine Learning For Cancer Classification - Part 1 - Preparing The Data Sets
microarray
bioconductor
expression
classification
updated 9 months ago by
Ram
41k • written 10.1 years ago by
Obi Griffith
20k
47
votes
19
replies
13k
views
8 follow
Tutorial:
Fastq Quality Control And Reporting - Aka Fastqc Versus The New Contenders
quality-control
fastqc
updated 11 months ago by
Ram
41k • written 10.8 years ago by
Istvan Albert
99k
42
votes
19
replies
7.6k
views
8 follow
Tutorial:
Designing Command-Line Interfaces (Clis) For Scientific Software
software
updated 9 months ago by
Ram
41k • written 10.8 years ago by
Daniel Standage
4.1k
8
votes
19
replies
13k
views
9 follow
Tutorial:
A:orthomcl with local mysql server on linux server, complete install
mysql
orthomcl
updated 9 months ago by
Ram
41k • written 9.1 years ago by
Lesley Sitter
▴ 600
53
votes
19
replies
43k
views
6 follow
Tutorial:
Visualizing Chip-Seq Data Using Ucsc [Bigwig]
visualization
bigwig
chip-seq
rna-seq
updated 9 months ago by
Ram
41k • written 11.7 years ago by
Sukhi Singh
11k
26
votes
17
replies
7.4k
views
8 follow
Tutorial:
virtualenv - running Python based software in isolation
python
virtualenv
updated 15 months ago by
Ram
41k • written 9.3 years ago by
Ian
6.0k
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 7 months ago by
GenoMax
136k • written 10.1 years ago by
Obi Griffith
20k
12
votes
17
replies
2.7k
views
Tutorial:
How to find the mapping percentages for data deposited in the Zaire ebolavirus bioproject from the 2014 outbreak
ebola
bwa
updated 11 months ago by
Ram
41k • written 8.5 years ago by
Istvan Albert
99k
8
votes
17
replies
2.9k
views
Tutorial:
Simple approach to RNA-seq (T-Bioinfo platform)
alignment
next-gen-sequencing
RNA-seq
updated 15 months ago by
Ram
41k • written 8.2 years ago by
elia.brodsky
▴ 340
42
votes
16
replies
23k
views
15 follow
Tutorial:
Tutorial: Analyze exome Copy number variation (CNV) in single patient or in population.
GISTIC
varscan2
CNV
copy-number
updated 16 months ago by
Ram
41k • written 8.2 years ago by
Chirag Nepal
★ 2.4k
99
votes
16
replies
32k
views
18 follow
Tutorial:
Heatmaps in R
heatmap
R
updated 9 months ago by
Ram
41k • written 7.4 years ago by
Jean-Karim Heriche
26k
63
votes
15
replies
13k
views
Tutorial:
Which human reference genome should I use?
assembly
genome
alignment
updated 6 months ago by
Ram
41k • written 5.2 years ago by
finswimmer
16k
34
votes
15
replies
6.0k
views
6 follow
Tutorial:
How to do data cleaning for VCF genetic file
vcf
updated 9 months ago by
Ram
41k • written 4.5 years ago by
Shicheng Guo
★ 9.3k
25
votes
15
replies
8.6k
views
8 follow
Tutorial:
Syllabus To Learn Bioinformatics From Online Video Resources
course
training
mooc
updated 9 months ago by
Ram
41k • written 10.9 years ago by
Medhat
9.7k
34
votes
15
replies
19k
views
12 follow
Tutorial:
TCGA UUIDS to TCGA barcode (SampleID) in R
next-gen
GDC
R
TCGA
updated 9 months ago by
Ram
41k • written 7.2 years ago by
martinguerrerog89
▴ 310
75
votes
14
replies
15k
views
15 follow
Tutorial:
List Of Bioinformatics Books
books
updated 10 months ago by
Ram
41k • written 10.6 years ago by
Medhat
9.7k
385 results • Page
1 of 8
Recent Votes
Answer: How to speed-up to contruct phylogenetic tree
Comment: How to speed-up to contruct phylogenetic tree
Answer: Renaming fasta files with their headers
Comment: What apps can read large FASTQ files on Windows?
Answer: Renaming fasta files with their headers
Answer: What Are The Most Influential Bioinformatics/Computational Biology Papers Of 202
Answer: What Are The Most Influential Bioinformatics/Computational Biology Papers Of 202
Recent Locations •
All
South Korea,
2 minutes ago
Belgium,
3 minutes ago
Czechia,
3 minutes ago
Spain,
4 minutes ago
Poland,
4 minutes ago
China,
8 minutes ago
Norway,
8 minutes ago
Recent Awards •
All
Popular Question
to
Barista
▴ 10
Teacher
to
dsull
★ 5.1k
Popular Question
to
Sara
▴ 30
Teacher
to
Elisabeth Gasteiger
★ 2.3k
Popular Question
to
majeedaasim
▴ 60
Popular Question
to
seta
★ 1.8k
Popular Question
to
octpus616
▴ 90
Recent Replies
Comment: Renaming fasta files with their headers
by
sebabiokr
▴ 10
Yes, Its perfectly working.. It will be useful if you share concat command too if there are same genes in the fasta file Thank you
Answer: Renaming fasta files with their headers
by
shenwei356
8.3k
I've got a general method, but you need to have some basic knowledge of regular expressions. If not, please learn them for 30 minutes: -…
Comment: Renaming fasta files with their headers
by
liorglic
★ 1.3k
It's hard to understand what your input and desired output look like. Please edit your original question so it includes a clear explanation…
Comment: SRA toolkit (NCBI) - sra to fasta
by
ATpoint
78k
Can be 23 or 109, it does not matter.
Comment: Renaming fasta files with their headers
by
sebabiokr
▴ 10
Thank you for your code, but i have a fasta file which contains [gene=rps12] ids, so i want to rename the header with gene id alone like >r…
Answer: How to speed-up to contruct phylogenetic tree
by
Mensur Dlakic
★ 25k
It depends on how long your protein is. Generally speaking, it shouldn't take weeks or months. Trees with more than ~100 branches are very …
Comment: How to speed-up to contruct phylogenetic tree
by
liorglic
★ 1.3k
Is there a specific reason you need to use MEGA? Maybe try another software which might be faster (e.g. PhyML, RaxML, IQ-TREE). Also, do yo…
Answer: Renaming fasta files with their headers
by
liorglic
★ 1.3k
Assuming that you have a directory containing multiple files with `.fasta` extension, each containing one record, you can do something like…
Comment: What are the methods to correlate/study metabolomics data to proteomics data?
by
LauferVA
3.8k
thank you, @wuschel, for the comprehensive reply.
Comment: Renaming fasta files with their headers
by
sebabiokr
▴ 10
i tried this command awk -F 'gene=|]|[.]{1}' '/^>/ {print $2}' 7seqNC_018552.1cds.fasta > 7NC_018552.fasta got only gene name alone wit…
Answer: Converting a .frq file to a data frame?
by
zau saa
▴ 70
simply add a word to line 1 as the name of column 6
Comment: SRA toolkit (NCBI) - sra to fasta
by
Sanjukta
• 0
Hi there, will it be an issue if we do not mention 60?
Comment: Renaming fasta files with their headers
by
sebabiokr
▴ 10
Yes there are many answer in this forum but they are specific to header line. it doesnot work with my header line and its difficult for me …
Answer: What are the methods to correlate/study metabolomics data to proteomics data?
by
WUSCHEL
▴ 740
There are various methods to correlate and study metabolomics data to proteomics data. These methods can be broadly categorized into: 1. C…
Comment: Renaming fasta files with their headers
by
Mensur Dlakic
★ 25k
This type of question is among the most frequently asked on this forum. Searching through previous posts should give you several different …
Traffic: 2193 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