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353 results • Page
2 of 8
Sort: Views
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Views
Votes
Replies
30
votes
14
replies
14k
views
8 follow
Tutorial:
Installation of the MuSiC suite on unsupported Linux distributions
install
genome
music
linux
smg
Tutorial
6.3 years ago by
Cyriac Kandoth
5.8k
76
votes
13
replies
14k
views
12 follow
Tutorial:
Exploring cancer mutation data portals
TCGA
Cancer
ICGC
Data-Portal
Mutation
updated 15 months ago by
Ram
37k • written 8.7 years ago by
Malachi Griffith
19k
53
votes
5
replies
14k
views
6 follow
Tutorial:
Machine Learning For Cancer Classification - Part 4 - Plotting A Kaplan-Meier Curve For Survival Analysis
r
updated 4 months ago by
Ram
37k • written 9.2 years ago by
Nicholas Spies
★ 1.2k
15
votes
5
replies
13k
views
Tutorial:
How to create a mutation lolliplot with GenVisR
genvisr
graphics
bioconductor
R
Tutorial
updated 6.4 years ago by
mia1260
• 0 • written 6.6 years ago by
Obi Griffith
20k
74
votes
14
replies
13k
views
15 follow
Tutorial:
List Of Bioinformatics Books
bioinformatics
tutorial
books
Tutorial
updated 4 months ago by
Ram
37k • written 9.7 years ago by
Medhat
9.5k
79
votes
21
replies
13k
views
16 follow
Tutorial:
Gene Set Enrichment Analysis
microarray
enrichment
Tutorial
GSEA
RNA-Seq
6 weeks ago by
Hamid Ghaedi
2.8k
16
votes
11
replies
13k
views
7 follow
Tutorial:
retrieve full TCGA datasets from cBioportal with R
cBioportal
TCGA
data_retrieval
RNASeq
R
Tutorial
updated 3.7 years ago by
raffael.azevedo
▴ 30 • written 6.3 years ago by
TriS
★ 4.6k
10
votes
7
replies
13k
views
Tutorial:
Removing rows with duplicate values based on 1 or more key values - linux awk
awk
bash
duplicates
linux
Tutorial
updated 5.4 years ago by
Alex Reynolds
34k • written 5.4 years ago by
Kevin Blighe
84k
20
votes
4
replies
13k
views
Tutorial:
How To Install A Specific Cdf Package For Use In Bioconductor
bioconductor
affymetrix
tutorial
Tutorial
updated 4.5 years ago by
judhenaosa
▴ 10 • written 9.9 years ago by
Obi Griffith
20k
16
votes
0
replies
12k
views
Tutorial:
Workshop - Analysis Of Next Generation Sequencing Data
rna-seq
analysis
tutorial
Tutorial
updated 10.5 years ago by
Leonor Palmeira
3.8k • written 10.8 years ago by
David Langenberger
9.8k
63
votes
13
replies
12k
views
11 follow
Tutorial:
Tutorial (How to analyze) on Whole Exome sequencing. Common Errors. Best Practices.
muTect
GATK
Picard
Exome
updated 11 months ago by
Ram
37k • written 8.2 years ago by
Chirag Nepal
★ 2.3k
8
votes
19
replies
12k
views
9 follow
Tutorial:
A:orthomcl with local mysql server on linux server, complete install
orthomcl
mysql
no root
local
Tutorial
updated 11 months ago by
Ram
37k • written 8.2 years ago by
Lesley Sitter
▴ 580
47
votes
19
replies
12k
views
8 follow
Tutorial:
Fastq Quality Control And Reporting - Aka Fastqc Versus The New Contenders
quality-control
fastqc
updated 18 days ago by
Ram
37k • written 9.9 years ago by
Istvan Albert
96k
44
votes
3
replies
12k
views
Tutorial:
A Wet-Lab Guide to 'what I wish I had known' for Computational Biology
bioinformatics
computational biology
Tutorial
6.8 years ago by
Sinji
★ 3.2k
16
votes
7
replies
12k
views
Tutorial:
Integrating VDJ sequencing data with Seurat
Seurat
clonotyping
VDJ
sc-RNAseq
Tutorial
updated 23 months ago by
Friederike
8.6k • written 3.6 years ago by
atakanekiz
▴ 310
1
vote
1
reply
11k
views
Tutorial:
Docker denied: requested access to the resource is denied
docker
updated 6 months ago by
Vincent Laufer
★ 2.5k • written 6 months ago by
kodwings
▴ 10
64
votes
26
replies
11k
views
7 follow
Tutorial:
Parallel processing in R
R
Tutorial
biocparallel
mclapply
foreach
3.2 years ago by
Kevin Blighe
84k
57
votes
15
replies
11k
views
Tutorial:
Which human reference genome should I use?
genome
alignment
assembly
Tutorial
4.2 years ago by
finswimmer
15k
12
votes
20
replies
11k
views
10 follow
Tutorial:
Associating VDJ clonotyping data with scRNA-seq in Seurat
seurat
single cell
RNA-Seq
TCR
Tutorial
20 months ago by
jared.andrews07
★ 14k
41
votes
6
replies
11k
views
Tutorial:
Annotating TCGA MAFs with the latest Ensembl/Gencode transcripts
maf
vcf
ensembl
tcga
somatic
Tutorial
2.1 years ago by
Cyriac Kandoth
5.8k
7
votes
2
replies
11k
views
Tutorial:
Howto use NCBI programs behind a HTTP proxy
blast-plus
HTTP-proxy
SRA-toolkit
updated 6 months ago by
Ram
37k • written 7.0 years ago by
piet
★ 1.8k
15
votes
5
replies
11k
views
6 follow
Tutorial:
Easy way to do GO enrichment in R
enrichr
gene
RNA-Seq
R
Tutorial
updated 8 months ago by
Kevin Blighe
84k • written 5.2 years ago by
ahmad mousavi
▴ 740
17
votes
3
replies
11k
views
Tutorial:
bedGraphToBigWig Tutorial and Report
bedGraphToBigWig
updated 6 months ago by
Ram
37k • written 7.0 years ago by
Shicheng Guo
★ 9.2k
48
votes
7
replies
10k
views
7 follow
Tutorial:
Genome Assembly Review Papers
papers
assembly
tutorial
Tutorial
updated 9.9 years ago by
lh3
33k • written 10.4 years ago by
Istvan Albert
96k
40
votes
9
replies
10k
views
10 follow
Tutorial:
Resources for flow cytometry bioinformatics
single-cell
Tutorial
flow-cytometry
9 weeks ago by
Ahill
★ 1.9k
64
votes
26
replies
10k
views
11 follow
Tutorial:
Generating consensus sequence from bam file
bam
consensus
fasta
Tutorial
updated 20 months ago by
bioinfo8
▴ 180 • written 3.9 years ago by
finswimmer
15k
70
votes
5
replies
10k
views
8 follow
Tutorial:
Bioinformatics For Metagenomic Analyses
QC
taxonomy
metagenomics
updated 9 months ago by
Ram
37k • written 8.8 years ago by
umer.zeeshan.ijaz
★ 1.8k
30
votes
8
replies
10k
views
7 follow
Tutorial:
How To Create A Bioinformatics Pipeline Using Spotify !
bioinformatics
pipeline
python
tutorial
Tutorial
updated 8 months ago by
Ram
37k • written 8.8 years ago by
Rad
▴ 800
8
votes
9
replies
10k
views
Tutorial:
Extracting subset of records from FASTA/FASTQ files based on exact/pattern matches of IDs (ONE-LINERS)
Tutorial
fasta
fastq
updated 16 months ago by
Ram
37k • written 8.8 years ago by
umer.zeeshan.ijaz
★ 1.8k
18
votes
2
replies
9.5k
views
Tutorial:
Video: RNA-Seq Alignment and Visualization using Galaxy and IGB
RNA-Seq
Galaxy
IGB
updated 10 months ago by
Ram
37k • written 8.3 years ago by
Nowlan Freese
▴ 860
60
votes
6
replies
8.8k
views
Tutorial:
Minimum Standards For Bioinformatics Command Line Tools
command-line
tools
bioinformatics
Tutorial
updated 10 weeks ago by
Ram
37k • written 9.5 years ago by
Medhat
9.5k
3
votes
13
replies
8.8k
views
Tutorial:
Merging multiple vcf files into Single vcf file
vcf
merge
bcftools
Tutorial
written 3.9 years ago by
jaybee
▴ 140
14
votes
0
replies
8.7k
views
Tutorial:
How to generate PCA plot and heatmaps in R
RNA-Seq
R
PCA
heatmap
Tutorial
6.4 years ago by
Ming Tang
★ 2.9k
37
votes
8
replies
8.6k
views
10 follow
Tutorial:
Methylation Analysis Tutorial in R_part1
cancer
Tutorial
R
methylation
updated 8 weeks ago by
krushnach80
★ 1.1k • written 2.3 years ago by
Hamid Ghaedi
2.8k
9
votes
4
replies
8.5k
views
Tutorial:
Using the MinION MinKNOW software on Ubuntu 1604
long reads
minion
oxford nanopore
Tutorial
2.9 years ago by
colindaven
4.4k
19
votes
4
replies
8.3k
views
Tutorial:
Rna Seq Experimental Design For Measuring Differential Gene Expression
rna-seq
tutorial
Tutorial
6.1 years ago by
Istvan Albert
96k
19
votes
0
replies
8.3k
views
Tutorial:
Metagenomics Review Papers
papers
metagenomics
tutorial
Tutorial
10.0 years ago by
Istvan Albert
96k
16
votes
5
replies
8.3k
views
Tutorial:
Using The Biomart Perl Api For Simple Queries
biomart
perl
api
tutorial
Tutorial
updated 4 months ago by
Ram
37k • written 10.4 years ago by
Obi Griffith
20k
9
votes
23
replies
8.2k
views
7 follow
Tutorial:
OrthoMCL installation on Ubuntu Linux
orthomcl
ubuntu
linux
mysql
Tutorial
4.7 years ago by
vimalkvn
▴ 310
20
votes
4
replies
8.1k
views
Tutorial:
DE analysis by edgeR
RNA-Seq
R
edgeR
Tutorial
6.4 years ago by
fi1d18
★ 4.1k
31
votes
6
replies
8.0k
views
Tutorial:
A simple tutorial for a complex ComplexHeatmap
complexheatmap
clustering
arthritis
pam
Tutorial
17 months ago by
Kevin Blighe
84k
9
votes
0
replies
8.0k
views
Tutorial:
Installing And Running Ncbi Blast
blast
tutorial
tutorial
Tutorial
10.8 years ago by
MSU course 2011
▴ 540
14
votes
0
replies
7.9k
views
Tutorial:
Video: ChIP-Seq Analysis and Visualization using Galaxy and IGB.
IGB
ChIP-Seq
Galaxy
MACS
RNA-Seq
updated 10 months ago by
Ram
37k • written 8.0 years ago by
Nowlan Freese
▴ 860
24
votes
15
replies
7.8k
views
8 follow
Tutorial:
Syllabus To Learn Bioinformatics From Online Video Resources
bioinformatics
training
tutorial
Tutorial
10 months ago by
Medhat
9.5k
0
votes
0
replies
7.7k
views
Tutorial:
Using PatMatch to search for nucleic and protein sequence patterns and integrate the results with Python/Jupyter for downstream analysis
Jupyter
Python
pattern
12 months ago by
Wayne
★ 1.5k
81
votes
8
replies
7.7k
views
6 follow
Tutorial:
Current Topics in Genome Analysis 2014 (collection of educational lectures)
genomics
workshop
Tutorial
lectures
training
updated 8 months ago by
Ram
37k • written 8.6 years ago by
Malachi Griffith
19k
3
votes
3
replies
7.6k
views
Tutorial:
High Speed Downloading of SRA, SAM and Fastq Files
sra
fastq
sam
Aspera Connect
Tutorial
5.1 years ago by
Wenhu_Cao
▴ 100
8
votes
7
replies
7.6k
views
Tutorial:
Getting Cegma/Genewise To Work On Centos, Rhel
centos
genewise
rhel
cegma
updated 11 months ago by
Ram
37k • written 9.2 years ago by
Adrian Pelin
★ 2.6k
6
votes
1
reply
7.5k
views
Tutorial:
Expression Analysis Of Rna-Seq Experiments With Tophat And Cufflinks
rna-seq
tophat
cufflinks
tutorial
Tutorial
10.7 years ago by
Istvan Albert
96k
2
votes
2
replies
7.5k
views
Tutorial:
Use fastp to preprocess FASTQ data with unique molecular identifer (UMI) integrated
UMI
FASTQ
fastp
Tutorial
5.2 years ago by
chen
★ 2.4k
353 results • Page
2 of 8
Recent Votes
Comment: a problem with getBM
C: Reorder heatmap rows in a dataset with missing values
A: Difference between GTF file with CHR and without CHR. ENSEMBL
Answer: Base recalibration in normal vs. tumor somatic variant calling in WXS data?
A: from .BAM to .BAI using samtools
Comment: bgzip error 4
Answer: Gene Set Enrichment Analysis, pathway, metabolism
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Teacher
to
ATpoint
68k
Popular Question
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tianshenbio
▴ 160
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maxdlf12
• 0
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Pierre Lindenbaum
152k
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LDT
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Recent Replies
Answer: a problem with getBM
by
sanaz
• 0
head(ensembl_ids) X baseMean log2FoldChange lfcS…
Answer: Recommendations needed for a tool for comparative gene set enrichment analyses v
by
fuellen
▴ 20
Hello and Thanks! OK, I should have written "The gene lists I have prepared" instead of "The DEG lists I have prepared". In any case, is …
Comment: a problem with getBM
by
Mike Smith
★ 1.9k
Can you update your post to show some examples of what's in your `ensembl_ids` object? Perhaps the contents of `head(ensembl_ids)`. It's …
Answer: trainGlimmerHMM Error while training a genome
by
congliu37
• 0
Hello, I got the same error using ~20,000 genes for training and it was solved by reducing training gene set. I assume GlimmerHMM was no…
Comment: How to Calulate Allele Frequency from a VCF File?
by
Jeremy Leipzig
21k
That's correct. You don't have biallelic alleles in mitochondria, so you can use either the Allele depth (AD) or depth of coverage (DP) for…
Comment: How to calculate tumor mutation burden (TMB)?
by
Fabio Marroni
★ 2.9k
I just published a [post][1] on my blog, in which I include a simple R function for computing TMB. Try to see if that helps. I followed the…
Comment: Gene Set Enrichment Analysis, pathway, metabolism
by
Rob
▴ 160
Thank you FrankStarling, ATpoint, jv, these were so helpful.
Comment: translate CDS to prot formatted with nt nubers
by
Pierre Lindenbaum
152k
> with nucleotide numbers and DNA/prot aligned line by line what does it mean ? Create a Minimal, Reproducible Example to enable others t…
Comment: How to translate CDS to an amino acid sequence
by
vvasta
• 0
I tried several of the online DNA translation tools but have not found one that would output DNA/prot alignment with nucleotide number w…
Comment: How possible deadlocks are there while migrating from MYISAM to InnoDb?
by
Pierre Lindenbaum
152k
but you already knew it. https://www.biostars.org/p/9551097/#9551098
Comment: How possible deadlocks are there while migrating from MYISAM to InnoDb?
by
Pierre Lindenbaum
152k
your question is not related to bioinformatics. Ask stackoverflow.com.
Comment: Statistical test for checking cis regulation?
by
Fabio Marroni
★ 2.9k
Hi lumos. It is not very clear to me what kind of information are you using for the test and how are you measuring cis-regulation. Are you …
Comment: Error 134 while aligning using hisat2
by
Fabio Marroni
★ 2.9k
Other instances of the same error were indeed related to disk [space][1]. Can you post the output of the command: `df -h /bams/`? Another p…
Comment: **Error: unable to open file or unable to determine types for file**
by
Pierre Lindenbaum
152k
``` Please ensure that your file is TAB delimited (e.g., cat -t FILE). - Also ensure that your file has integer chromosome coordinates in t…
Comment: bgzip error 4
by
Pierre Lindenbaum
152k
I/O error. Where are you writing , which filesytem ? do you have enough space ? what is the output of gzip < chr1.vcf.gz > chr1.vcf.gz…
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