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117 results • Page
2 of 3
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Views
Votes
Replies
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
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
16
votes
11
replies
7.2k
views
Tutorial:
How to Use Biostars, Part II: Post types, Deleting, (Un)Subscribing, Linking and Bookmarking
meta
how-to
documentation
Tutorial
5 months ago by
Ram
37k
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
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
18
votes
21
replies
6.6k
views
10 follow
Tutorial:
Create de novo repeat library
de-novo
repeat
Tutorial
annotation
updated 7 weeks ago by
evoecogen
▴ 20 • written 3.2 years ago by
Juke34
7.5k
26
votes
17
replies
6.5k
views
8 follow
Tutorial:
virtualenv - running Python based software in isolation
python
virtualenv
updated 4 months ago by
Ram
37k • written 8.5 years ago by
Ian
5.9k
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
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
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
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
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
34
votes
15
replies
4.7k
views
6 follow
Tutorial:
How to do data cleaning for VCF genetic file
vcf
Tutorial
updated 11 months ago by
Ram
37k • written 3.6 years ago by
Shicheng Guo
★ 9.2k
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
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
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
12
votes
31
replies
4.5k
views
6 follow
Tutorial:
gene set filter/selection for training ab initio annotation tools
gene
geneset
abinitio
Tutorial
genome
3 months ago by
Juke34
7.5k
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
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
9
votes
0
replies
4.0k
views
Tutorial:
Analysis of dbGaP data on the cloud
AWS
dbGaP
Cloud
updated 6 months ago by
Ram
37k • written 7.0 years ago by
Malachi Griffith
19k
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
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
13
votes
9
replies
3.5k
views
Tutorial:
TCGA transcriptome data to R (DESeq2)
TCGA
GDC
DESeq2
updated 7 months ago by
dk0319
▴ 40 • written 14 months ago by
Barry Digby
★ 1.1k
1
vote
0
replies
3.5k
views
Tutorial:
embarrassingly easy parallel in Python, Perl and R
parallel
updated 5 months ago by
Ram
37k • written 7.2 years ago by
Echo
▴ 70
9
votes
0
replies
3.4k
views
Tutorial:
Video: Intro to All New Features in IGB 8.2
R
paired-end
IGB
updated 10 months ago by
Ram
37k • written 8.1 years ago by
Nowlan Freese
▴ 860
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
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
7
votes
8
replies
3.0k
views
Tutorial:
Determine if a transcription factor is bound with CENTIPEDE
ChIP-Seq
transcription-factor
DNase-Seq
CENTIPEDE
updated 7 weeks ago by
Ram
37k • written 7.6 years ago by
Kamil
★ 2.1k
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
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
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
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
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
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
27
votes
0
replies
2.5k
views
Tutorial:
Building Docker images
singularity
docker
container
6 months ago by
ATpoint
68k
1
vote
0
replies
2.5k
views
Tutorial:
How to auto-annotate sequences with the Genome Compiler service.
RNA-Seq
genome
sequence
blast
updated 5 months ago by
Ram
37k • written 7.2 years ago by
rutial
▴ 40
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
13
votes
8
replies
2.4k
views
Tutorial:
Setting up Aspera Connect (ascp) on Linux and macOS
aspera
ascp
10 weeks ago by
ATpoint
68k
9
votes
0
replies
2.4k
views
Tutorial:
Introduction to Next Generation Sequencing (Part 1)
polony
emulsion-pcr
next-gen-sequencing
updated 3 months ago by
Ram
37k • written 7.5 years ago by
shawncho
▴ 90
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
8
votes
17
replies
2.3k
views
Tutorial:
Simple approach to RNA-seq (T-Bioinfo platform)
alignment
next-gen-sequencing
RNA-seq
updated 5 months ago by
Ram
37k • written 7.3 years ago by
elia.brodsky
▴ 340
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
1
vote
0
replies
2.2k
views
Tutorial:
Using wgsim to generate mate pair and single reads
wgsim
updated 5 months ago by
Ram
37k • written 7.3 years ago by
Luke Crichton
▴ 370
0
votes
0
replies
2.2k
views
Tutorial:
Hands-on NGS analysis workshop in Bethesda, MD
NGS-Analysis
updated 3 months ago by
Ram
37k • written 7.5 years ago by
joshua.shallom
• 0
12
votes
17
replies
2.2k
views
Tutorial:
How to find the mapping percentages for data deposited in the Zaire ebolavirus bioproject from the 2014 outbreak
ebola
bwa
updated 5 weeks ago by
Ram
37k • written 7.6 years ago by
Istvan Albert
96k
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
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
1
vote
0
replies
1.8k
views
Tutorial:
Visualizing protein annotations through ProtAnnot
RNA-Seq
IGB
protein-annotation
updated 5 months ago by
Ram
37k • written 7.1 years ago by
Nowlan Freese
▴ 860
7
votes
14
replies
1.8k
views
6 follow
Tutorial:
Install required dependencies for GATK4 on remote server without root privilege
gatk
updated 3 months ago by
Angelina_G
• 0 • written 11 months ago by
thehung92phuyen
▴ 30
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
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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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