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117 results • Page
2 of 3
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8
votes
7
replies
7.6k
views
Tutorial:
Getting Cegma/Genewise To Work On Centos, Rhel
centos
genewise
rhel
cegma
updated 12 months ago by
Ram
37k • written 9.2 years ago by
Adrian Pelin
★ 2.6k
9
votes
7
replies
5.0k
views
Tutorial:
ClusterProfiler A software for functional enrichment of differentially expressed genes- A tutorial
Software
clusterProfiler
Tool
rna-seq
tool
updated 4 months ago by
Shubham
• 0 • written 23 months ago by
Novogene
▴ 210
10
votes
7
replies
751
views
Tutorial:
Sequence Alignment from Scratch with BWA
alignment
bwa
DNA
4 days ago by
barslmn
★ 1.2k
11
votes
6
replies
4.5k
views
Tutorial:
sharing some naive codes for microarray normalization in R with whom are too new in R alike me
R
updated 6 months ago by
Ram
37k • written 7.0 years ago by
fi1d18
★ 4.1k
60
votes
6
replies
8.8k
views
Tutorial:
Minimum Standards For Bioinformatics Command Line Tools
command-line
tools
bioinformatics
Tutorial
updated 11 weeks ago by
Ram
37k • written 9.5 years ago by
Medhat
9.5k
29
votes
6
replies
21k
views
Tutorial:
Transforming And Manipulating Color Space Reads
conversion
solid
updated 4 months ago by
Ram
37k • written 10.8 years ago by
Istvan Albert
96k
70
votes
5
replies
10k
views
8 follow
Tutorial:
Bioinformatics For Metagenomic Analyses
QC
taxonomy
metagenomics
updated 10 months ago by
Ram
37k • written 8.8 years ago by
umer.zeeshan.ijaz
★ 1.8k
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
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
63
votes
5
replies
6.6k
views
10 follow
Tutorial:
Informatics of RNA-Seq.
next-gen
RNA-Seq
updated 3 months ago by
Ram
37k • written 7.5 years ago by
GouthamAtla
12k
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
34
votes
4
replies
5.5k
views
Tutorial:
[Beginner] Introduction to bioinformatics file types
fastq
fasta
bed
SAM
updated 11 weeks ago by
Ram
37k • written 7.5 years ago by
Luke Crichton
▴ 370
8
votes
3
replies
2.4k
views
Tutorial:
Free online interactive Ensembl training
ensembl
training
genome
updated 6 months ago by
Ram
37k • written 7.0 years ago by
Emily
23k
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
10
votes
3
replies
1.5k
views
Tutorial:
FASTA file split
Tutorial
split
fasta
tutorial
7 months ago by
Juke34
7.5k
1
vote
3
replies
347
views
Tutorial:
Gibbs Sampling Algorithm Implementation for Searching DNA Motifs
montecarlo
DNA
motif
gibbs
sampling
splice
updated 6 weeks ago by
GenoMax
125k • written 6 weeks ago by
barslmn
★ 1.2k
13
votes
3
replies
4.6k
views
Tutorial:
Video: Visualization of whole genome DNA methylation data in IGB
Bismark
BS-Seq
RNA-Seq
IGB
updated 8 months ago by
Ram
37k • written 7.9 years ago by
Nowlan Freese
▴ 860
0
votes
3
replies
2.3k
views
Tutorial:
Automatic Primer Design
Assembly
sequence
updated 5 months ago by
Ram
37k • written 7.2 years ago by
rutial
▴ 40
10
votes
3
replies
4.1k
views
Tutorial:
Video: Alternative Splicing and Primer Design
RNA-Seq
IGB
updated 10 days ago by
Ram
37k • written 8.4 years ago by
Nowlan Freese
▴ 860
1
vote
2
replies
2.8k
views
Tutorial:
Standalone BLAST error: UnexpectedTagClassByte
software-error
blast
updated 3 months ago by
Ram
37k • written 7.5 years ago by
Harry Detering
▴ 10
6
votes
2
replies
2.1k
views
Tutorial:
Unsupervised clustering on gene expression data
gene
RNA-seq
expression
clustering
4 months ago by
Hamid Ghaedi
2.8k
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
3
votes
2
replies
1.1k
views
Tutorial:
Running fastq_screen on your data
fastqscreen
10 months ago by
rohitsatyam102
▴ 690
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
6
votes
2
replies
3.6k
views
Tutorial:
GATK method for filtering vcf lines using GT values at all or multisample level.
variant filtration
vcf
genotype
genome
Tutorial
11 months ago by
kirannbishwa01
★ 1.5k
1
vote
2
replies
394
views
Tutorial:
ViennaRNA package installation in Windows
install
mfold
viennarna
rna
windows
updated 4 months ago by
Asaf
9.5k • written 4 months ago by
Sandhiya
▴ 20
21
votes
2
replies
3.3k
views
Tutorial:
Extracting genomic feature sequences from GTF/GFF files with AGAT
extract
GTF
GFF
sequence
updated 4 months ago by
eggrandio
▴ 40 • written 21 months ago by
Juke34
7.5k
78
votes
2
replies
53k
views
Tutorial:
How To Ask Good Questions On Technical And Scientific Forums
tutorial
Tutorial
written 9.6 years ago by
Eric Normandeau
11k
15
votes
2
replies
2.7k
views
Tutorial:
Introduction to bedtools.
bedtools
tutorial
Tutorial
updated 11 months ago by
Ram
37k • written 8.2 years ago by
Aaronquinlan
11k
8
votes
2
replies
6.2k
views
Tutorial:
Troubleshooting issues with SURPI pipeline for pathogen identification from complex metagenomic NGS data.
metagenomics
clinical-genomics
updated 12 months ago by
Ram
37k • written 8.2 years ago by
GouthamAtla
12k
0
votes
2
replies
2.4k
views
Tutorial:
Webinar on 'An integrated RNA and DNA approach to unravel genetic regulation in cancer' on 25 Feb
SNP
cancer
gene-regulation
multiomics
rna-seq
updated 9 months ago by
Ram
37k • written 8.0 years ago by
Genomics
▴ 70
14
votes
2
replies
6.0k
views
Tutorial:
ChIP-seq analysis tutorial
Tutorials
ChIP-Seq
updated 4 months ago by
Ram
37k • written 7.4 years ago by
Ming Tang
★ 2.9k
15
votes
2
replies
1.3k
views
Tutorial:
Germline variant calling pipeline using Snakemake
snakemake
GATK
germline_variant_calling
updated 3 months ago by
brunobsouzaa
▴ 790 • written 16 months ago by
nhaus
▴ 270
10
votes
2
replies
3.1k
views
Tutorial:
How to find PubMed records where you were author (member) as part of a consortium
pubmed
updated 5 months ago by
Ram
37k • written 7.2 years ago by
Obi Griffith
20k
14
votes
2
replies
2.6k
views
Tutorial:
Methylation Analysis Tutorial in R_part2
RNA-Seq
R
methylation
Tutorial
cancer
4 months ago by
Hamid Ghaedi
2.8k
1
vote
1
reply
1.1k
views
Tutorial:
Generating count matrix for STAR counts in GDC v32.0 for RNA-Seq
TCGA
Counts
v32.0
Biolinks
GDC
STAR
updated 7 weeks ago by
bioinfonewbie
• 0 • written 9 months ago by
dare_devil
★ 1.7k
2
votes
1
reply
2.7k
views
Tutorial:
Scripting for Biology - Online Virtual Classroom-based Module
perl
python
GO
class
updated 4 months ago by
Ram
37k • written 7.4 years ago by
ugly.betty77
★ 1.1k
1
vote
1
reply
252
views
Tutorial:
Converting TSV file to VCF
vcf
preprocessing
frequency
updated 19 days ago by
Pierre Lindenbaum
152k • written 19 days ago by
barslmn
★ 1.2k
41
votes
1
reply
5.8k
views
Tutorial:
Basic normalization, batch correction and visualization of RNA-seq data
edger
tutorial
rna-seq
6 weeks ago by
ATpoint
68k
5
votes
1
reply
3.9k
views
Tutorial:
Mini-tutorial: How to fix too-long sequence names in SyMAP
alignment
updated 6 weeks ago by
Ram
37k • written 7.6 years ago by
Philipp Bayer
7.7k
11
votes
1
reply
2.0k
views
Tutorial:
Dealing with nanopore fast5 files compressed with vbz
hdf5
nanopore
fast5
vbz
MinKNOW
updated 5 months ago by
Assa Yeroslaviz
★ 1.8k • written 12 months ago by
dariober
14k
22
votes
1
reply
2.9k
views
Tutorial:
Introduction To R Course Materials Available
R
updated 27 days ago by
Ram
37k • written 10.8 years ago by
Sean Davis
26k
12
votes
1
reply
4.7k
views
Tutorial:
RepSeq data processing and analysis
immunology
tcr
repseq
sequencing
repertoire
updated 3 months ago by
Ram
37k • written 7.5 years ago by
mikhail.shugay
3.5k
12
votes
1
reply
4.7k
views
Tutorial:
scRNA-seq CITE-seq-count bioinformatics
RNA-Seq
CITE-seq-count
Tutorial
scRNA-seq
5 months ago by
colindaven
4.4k
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
1
vote
0
replies
2.9k
views
Tutorial:
Canadian Bioinformatics Workshops 2016 Series
Assembly
SNP
RNA-Seq
ChIP-Seq
alignment
updated 7 months ago by
Ram
37k • written 7.0 years ago by
meyer.ann
▴ 30
12
votes
0
replies
7.2k
views
Tutorial:
Plot average methylation levels across TSS region
bedtools
RRBS
R
methylation
updated 9 months ago by
Ram
37k • written 8.0 years ago by
TriS
★ 4.6k
1
vote
0
replies
317
views
Tutorial:
Gene Expression Omnibus Data Mining (IA): Quick and easy download of GEO data
geo
mining
data
RNA-Seq
R
5 weeks ago by
Novogene
▴ 210
1
vote
0
replies
216
views
Tutorial:
Prediction of Ribosomal RNA Genes Using RNAmmer Software
rRNA
RNAmmer
Annotation
Genome
26 days ago by
Dr.Animo
▴ 40
3
votes
0
replies
1.8k
views
Tutorial:
Live webinar on 25 June: Copy Number Detection in Inherited Disorders and Somatic Cancer
copy-number-analysis
strand-ngs
cnv
DNA-seq
tumor
updated 27 days ago by
Ram
37k • written 7.7 years ago by
Genomics
▴ 70
117 results • Page
2 of 3
Recent Votes
Answer: Looking for a tool which provides mapping quality score distributions from BAM f
Comment: mirbase does not have miRNA annotation of my species, what are the alternatives?
Answer: mirbase does not have miRNA annotation of my species, what are the alternatives?
Answer: Gviz python alternative
Answer: Gviz python alternative
Answer: Annotating snps with gene information
Comment: Plotting Correlation matrix
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Answer: Python Dictionary of Primer3-py Primer Designs
by
barslmn
★ 1.2k
You're so close. You can simply loop over sequence dictionaries like you did with the `design_output` and check if the keys with `startswit…
Comment: Unable to install clusterProfiler on Mac M1
by
GenoMax
125k
Have you installed `Xcode` and the command line tools that go with? If not you will need to install those.
Answer: SRA taxonomy analysis
by
Steve
• 0
Thanks @genomax I created an aws glue crawler to pull the data from s3://sra-pub-metadata-us-east-1/sra_tax_analysis_tool/ I wonder if it …
Comment: mirbase does not have miRNA annotation of my species, what are the alternatives?
by
demoraesdiogo2017
▴ 80
thanks! however, shouldn't it also have a gtf/gff file with the annotations?
Comment: Getting a VCF file from plink .bed, .fam and .bim files
by
hi.there
• 0
Thanks Ram. Yes. I have read all of this documentation before. --file and --bfile. I have actually tried doing the complete liftover be…
Answer: SRA taxonomy analysis
by
GenoMax
125k
This data may only be available using `BigQuery` for [**SRA in cloud**][1]. For more information on querying: https://www.ncbi.nlm.nih.g…
Comment: MesKit error message - Join columns must be present in data.
by
CH1374
• 0
column names for the maf are: [1] "Hugo_Symbol" "Chromosome" "Start_Position" [4] "End_Position" "Variant_Classification" "Variant_Type" [7…
Answer: scaffold assembly inro chromosomal assembly using reference genome
by
samuel.a.odonnell
▴ 450
Have a look at ragtag and ragout. I use ragout for smaller assemblies (~20 Mb and less) and ragtag for larger genomes.
Comment: CompressedGRangesList don't have seqLengths: BiocParallel errors: Error in covRl
by
Ram
37k
I've been meaning to work on a Biostars-specific code formatting manual for a while now but the basic is pretty simple: You can use backtic…
Comment: Multiline Fasta To Single Line Fasta
by
Onur
• 0
Thank you it's also worked for me too. Best,
Comment: CompressedGRangesList don't have seqLengths: BiocParallel errors: Error in covRl
by
Estefania
▴ 10
Thanks Ram. Could you point to a manual on how to make the post look like yours? I just copy-pasted my R script and this is how it shows in…
Comment: extracting input files form Seurat
by
rasing02
• 0
Thank you jared.andrews07
Comment: extracting input files form Seurat
by
rasing02
• 0
Yes, I just need the input data so that investigators can use tools other than R to visualize the data in form of viloin plots or feature p…
Comment: Downloading 450k methylation data from GEO
by
GenoMax
125k
I don't think they have provided processed data as a single upload.
Answer: extracting input files form Seurat
by
jared.andrews07
★ 14k
You can get the data behind any of the plots easily enough: ``` p <- VlnPlot(Seurat_object, features = "X", group.by = "Names",split.by…
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