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412 results • Page
4 of 9
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Votes
Replies
12
votes
0
replies
7.9k
views
Tutorial:
Plot average methylation levels across TSS region
bedtools
RRBS
R
methylation
updated 2.1 years ago by
Ram
43k • written 9.3 years ago by
TriS
★ 4.7k
12
votes
1
reply
5.1k
views
Tutorial:
RepSeq data processing and analysis
immunology
tcr
repseq
sequencing
repertoire
updated 19 months ago by
Ram
43k • written 8.8 years ago by
mikhail.shugay
3.5k
12
votes
20
replies
14k
views
10 follow
Tutorial:
Associating VDJ clonotyping data with scRNA-seq in Seurat
single-cell
RNA-Seq
seurat
TCR
updated 14 months ago by
Ram
43k • written 5.0 years ago by
jared.andrews07
★ 16k
11
votes
1
reply
2.7k
views
Tutorial:
Guidelines for the computational analysis of single-cell RNA sequencing data
scRNA-seq
updated 14 months ago by
Ram
43k • written 3.4 years ago by
Mensur Dlakic
★ 27k
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 12 months ago by
Ram
43k • written 6.7 years ago by
Kevin Blighe
88k
11
votes
7
replies
12k
views
Tutorial:
ClusterProfiler A software for functional enrichment of differentially expressed genes- A tutorial
clusterProfiler
Software
rna-seq
updated 12 months ago by
Ram
43k • written 3.2 years ago by
Novogene
▴ 420
11
votes
3
replies
1.4k
views
Tutorial:
Creating great documentation for bioinformatics software
Software-Documentation
updated 13 months ago by
Ram
43k • written 7.8 years ago by
venu
7.1k
11
votes
0
replies
6.9k
views
Tutorial:
Yes .. BBMap can do that! - Part II randomreads (read simulation), demuxbyname/filterbyname, bbsplit (read binning/decontamination) and pileup (cover…
bbmap
updated 14 months ago by
Ram
43k • written 3.4 years ago by
GenoMax
142k
10
votes
0
replies
2.6k
views
Tutorial:
Introduction to Next Generation Sequencing (Part 1)
polony
emulsion-pcr
next-gen-sequencing
updated 19 months ago by
Ram
43k • written 8.8 years ago by
shawncho
▴ 100
10
votes
2
replies
3.7k
views
Tutorial:
Graph visualization with igraph in R
Visualization
igraph
Graph
R
Network
updated 12 months ago by
Ram
43k • written 7.1 years ago by
Jean-Karim Heriche
27k
10
votes
1
reply
2.3k
views
Tutorial:
introduce a tool for fast identification of SARS-CoV-2 and other microbes from sequencing data
SARS-CoV-2
fastv
COVID-19
updated 14 months ago by
Ram
43k • written 4.1 years ago by
chen
★ 2.5k
10
votes
3
replies
4.5k
views
Tutorial:
Video: Alternative Splicing and Primer Design
RNA-Seq
IGB
updated 16 months ago by
Ram
43k • written 9.7 years ago by
Nowlan Freese
▴ 860
10
votes
5
replies
24k
views
Tutorial:
Y-DNA and mtDNA Haplogroup Predictor
haplogroup
updated 14 months ago by
Ram
43k • written 5.8 years ago by
Shicheng Guo
★ 9.4k
10
votes
1
reply
9.3k
views
Tutorial:
How to select reads with specific flag using samtools
next-gen-sequencing
updated 12 months ago by
Ram
43k • written 6.7 years ago by
imlituan
▴ 110
10
votes
4
replies
11k
views
Tutorial:
Using the MinION MinKNOW software on Ubuntu 1604
long-reads
oxford-nanopore
minion
updated 14 months ago by
Ram
43k • written 4.9 years ago by
colindaven
6.4k
10
votes
4
replies
5.7k
views
Tutorial:
Unsupervised clustering on gene expression data
gene-expression
clustering
RNA-seq
9 months ago by
Hamid Ghaedi
3.2k
10
votes
6
replies
4.2k
views
Tutorial:
CorLevelPlot - Visualise correlation results, e.g., clinical parameter correlations
correlation
corlevelplot
updated 7 weeks ago by
Ram
43k • written 6.3 years ago by
Kevin Blighe
88k
10
votes
31
replies
11k
views
10 follow
Tutorial:
OrthoMCL installation on Ubuntu Linux
ubuntu
orthomcl
mysql
linux
updated 6 months ago by
ha2606
• 0 • written 6.4 years ago by
vimalkvn
▴ 320
10
votes
0
replies
5.0k
views
Tutorial:
Yes .. BBMap can do that! - Part I : bbmap (aligner), bbduk (scan/trim), repair (fix PE reads) and reformat (format conversions)
bbmap
updated 14 months ago by
Ram
43k • written 3.4 years ago by
GenoMax
142k
10
votes
2
replies
3.5k
views
Tutorial:
How to find PubMed records where you were author (member) as part of a consortium
pubmed
updated 21 months ago by
Ram
43k • written 8.5 years ago by
Obi Griffith
20k
9
votes
2
replies
5.5k
views
Tutorial:
From Data import to Normalization in Microarray Analysis using in R (Part I)
gene
R
updated 13 months ago by
Ram
43k • written 7.9 years ago by
majuang66
▴ 140
9
votes
0
replies
4.4k
views
Tutorial:
Analysis of dbGaP data on the cloud
AWS
dbGaP
Cloud
updated 22 months ago by
Ram
43k • written 8.3 years ago by
Malachi Griffith
20k
9
votes
5
replies
2.3k
views
Tutorial:
What is new in samtools release 1.5 [Solstice Release] (21st June 2017)
samtools
updated 12 months ago by
Ram
43k • written 6.9 years ago by
Istvan Albert
100k
9
votes
0
replies
3.7k
views
Tutorial:
Video: Intro to All New Features in IGB 8.2
R
paired-end
IGB
updated 2.2 years ago by
Ram
43k • written 9.4 years ago by
Nowlan Freese
▴ 860
9
votes
14
replies
3.8k
views
6 follow
Tutorial:
Install required dependencies for GATK4 on remote server without root privilege
gatk
updated 19 months ago by
Angelina_G
▴ 10 • written 2.2 years ago by
thehung92phuyen
▴ 40
9
votes
9
replies
4.2k
views
Tutorial:
Determine % of reference genome covered by aligned SAM/BAM
reference-coverage
ngs
updated 12 months ago by
Ram
43k • written 6.7 years ago by
Kevin Blighe
88k
9
votes
3
replies
4.2k
views
Tutorial:
Ht Sequence Analysis With R And Bioconductor By The Bioinformatics Center At Uc Riverside
bioconductor
updated 15 months ago by
Ram
43k • written 11.8 years ago by
Istvan Albert
100k
9
votes
0
replies
8.7k
views
Tutorial:
Installing And Running Ncbi Blast
blast
updated 15 months ago by
Ram
43k • written 12.1 years ago by
MSU course 2011
▴ 540
8
votes
2
replies
1.2k
views
Tutorial:
Updated List of Unix tutorials 2023
Unix
updated 9 months ago by
Ram
43k • written 9 months ago by
carlopecoraro2
★ 2.5k
8
votes
19
replies
13k
views
9 follow
Tutorial:
A:orthomcl with local mysql server on linux server, complete install
mysql
orthomcl
updated 14 months ago by
Ram
43k • written 9.5 years ago by
Lesley Sitter
▴ 600
8
votes
0
replies
2.8k
views
Tutorial:
Pipes in R: An introduction and some advanced tips and tricks.
R
3.1 years ago by
rpolicastro
13k
8
votes
9
replies
11k
views
Tutorial:
Extracting subset of records from FASTA/FASTQ files based on exact/pattern matches of IDs (ONE-LINERS)
fastq
fasta
updated 14 months ago by
Ram
43k • written 10.1 years ago by
umer.zeeshan.ijaz
★ 1.8k
8
votes
7
replies
8.4k
views
Tutorial:
Getting Cegma/Genewise To Work On Centos, Rhel
centos
genewise
rhel
cegma
updated 2.3 years ago by
Ram
43k • written 10.5 years ago by
Adrian Pelin
★ 2.6k
8
votes
1
reply
1.9k
views
Tutorial:
A Guide to DNA Sequencing Techniques Part 1
dna
sanger
sequencing
pyrosequencing
updated 14 months ago by
Ram
43k • written 8.9 years ago by
Luke Crichton
▴ 430
8
votes
12
replies
6.8k
views
Tutorial:
Create your own VPN to access work resources from home
tinyproxy
OpenVPN
VPN
updated 13 months ago by
Ram
43k • written 8.0 years ago by
John
13k
8
votes
17
replies
3.2k
views
Tutorial:
Simple approach to RNA-seq (T-Bioinfo platform)
alignment
next-gen-sequencing
RNA-seq
updated 20 months ago by
Ram
43k • written 8.6 years ago by
elia.brodsky
▴ 340
8
votes
1
reply
1.4k
views
Tutorial:
Split a 'linearised' (flattened) FASTA sequence into multi-line using AWK
fasta
awk
updated 14 months ago by
Ram
43k • written 3.2 years ago by
Kevin Blighe
88k
8
votes
2
replies
6.6k
views
Tutorial:
Troubleshooting issues with SURPI pipeline for pathogen identification from complex metagenomic NGS data.
metagenomics
clinical-genomics
updated 2.3 years ago by
Ram
43k • written 9.5 years ago by
GouthamAtla
12k
8
votes
3
replies
2.8k
views
Tutorial:
Free online interactive Ensembl training
ensembl
training
genome
updated 22 months ago by
Ram
43k • written 8.3 years ago by
Emily
23k
7
votes
0
replies
3.0k
views
Tutorial:
On the concept of constant or intercept used in Differential Expression (DE) analysis
regression
limma
DESeq2
updated 13 months ago by
Ram
43k • written 8.0 years ago by
Antonio R. Franco
★ 5.1k
7
votes
2
replies
3.9k
views
Tutorial:
How to extract fastq files from SRA data that contains both paired and unpaired reads
fastq-dump
sra
updated 13 months ago by
Ram
43k • written 8.1 years ago by
thomaskuilman
▴ 850
7
votes
1
reply
213
views
Tutorial:
removeBatchEffect explained using base R linear models
limma
effects
batch
removebatcheffects
updated 13 days ago by
dariober
14k • written 13 days ago by
nhaus
▴ 360
7
votes
2
replies
3.6k
views
Tutorial:
List Of Tools For Mapping High-Throughput Sequencing Data (2012)
next-gen
mapping
updated 15 months ago by
Ram
43k • written 11.6 years ago by
Mary
11k
7
votes
0
replies
5.3k
views
Tutorial:
Mothur Analyzing 16S Of Ngs High Through-Put Sequencing
next-gen
updated 15 months ago by
Ram
43k • written 12.0 years ago by
Shuixia100
▴ 120
7
votes
2
replies
1.8k
views
Tutorial:
A tale of two heatmap function
clustering
heatmap
updated 13 months ago by
Ram
43k • written 7.7 years ago by
Ming Tommy Tang
★ 3.9k
7
votes
2
replies
12k
views
Tutorial:
Howto use NCBI programs behind a HTTP proxy
blast-plus
HTTP-proxy
SRA-toolkit
updated 22 months ago by
Ram
43k • written 8.3 years ago by
piet
★ 1.8k
7
votes
3
replies
3.0k
views
Tutorial:
Prediction of Ribosomal RNA Genes Using RNAmmer Software
Annotation
rRNA
RNAmmer
Genome
updated 4 weeks ago by
colindaven
6.4k • written 16 months ago by
Dr.Animo
▴ 130
7
votes
1
reply
2.3k
views
Tutorial:
A gentle introduction to biogo
sequence
golang
biogo
updated 12 months ago by
Ram
43k • written 6.6 years ago by
Botond Sipos
★ 1.7k
7
votes
2
replies
2.0k
views
Tutorial:
Introduction to Human Genomics for Clinical Informaticists
genome
updated 12 months ago by
Ram
43k • written 6.8 years ago by
bdolin
▴ 90
7
votes
3
replies
2.6k
views
Tutorial:
Automated dbSNP lookup by rsID position, plus genome build liftover
rsid
hg19
liftover
hg38
dbsnp
updated 13 months ago by
Randy H
▴ 110 • written 21 months ago by
Kevin Blighe
88k
412 results • Page
4 of 9
Recent Votes
Answer: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
The Biostar Herald for Monday, May 20, 2024
Answer: Generating Group/Cluster Lists from fastq files
The Biostar Herald for Monday, May 20, 2024
ClusterProfiler : What is GeneRatio and BgRatio?
A: ClusterProfiler : What is GeneRatio and BgRatio?
A: ClusterProfiler : What is GeneRatio and BgRatio?
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Answer: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
Harshita
• 0
It seems that the authors in this paper have used paired-end sequences only for their analysis, and for that, they would also have used the…
Answer: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
Harshita
• 0
Thank you so much for helping me out in this! I have used most of the sequences that are found in this table. But, some samples like the…
Answer: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
GenoMax
142k
Looks like the samples are from this project: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA320483&o=acc_s%3Aa This table has the SR…
Comment: Filter Genome for Specific Sites
by
Pierre Lindenbaum
161k
> My sites are in an Excel file right now ![enter image description here][1] <!-- was an American educator and academic administrator…
Comment: Filter Genome for Specific Sites
by
GenoMax
142k
> I have a list of ~1,300 single bp sites Convert your file to plain text [**BED format**][1] (three fields required). Use `bedtools slo…
Comment: How to generate an Upset plot in R to plot the shared variants between cell free
by
sainavyav22
• 0
It worked, Thank you very much!
Comment: What marks a De-Novo Genome assembly as FAILED?
by
dthorbur
★ 2.0k
I'm unsure you'll be able to identify whole chromosomes that are not core from illumina reads alone. That might be easier to do with a micr…
Comment: Error in using BioSampleParser tool: subscript out of bounds
by
Mohamed Samir
▴ 20
Dear marco, We need to ask ourselves why it is not working for all bioprojects ? I have looked into this, and observed that as long as the…
Comment: Why most genes have high padj values
by
Ram
43k
You ***want*** ~3000 DE genes?<a href="" title="Text added because biostars parser needs it"></a>
Answer: Generating Group/Cluster Lists from fastq files
by
GenoMax
142k
> I was hoping to just do this in galaxy This is not a galaxy option but `clumpify.sh ` from BBMap suite can cluster sequences/dedupe th…
Comment: Practical Haplotype Graph v2 not finding correct paths
by
beantkapoor16
▴ 10
Hello, just wanted to check in if the code has been fixed yet? Thank you.
Comment: Super ehancers
by
jared.andrews07
★ 16k
Based on the [source code](https://bitbucket.org/young_computation/rose/src/feb35cb1d9556a76f8ac1f51521539bb30651343/ROSE_utils.py?at=maste…
Comment: HGVS Nomenclature of Multiple Indels found in Cis
by
Ram
43k
They're not addressing the actual question, just saying something tangentially related. It looks like their understanding of both consensus…
Comment: Super ehancers
by
Oburah
• 0
Hello, i encountered this problem when running ROSE, Do anyone know how to solve it? python2.7 ROSE_main.py -g HG38 -i /home/hesborn/…
Answer: How to generate an Upset plot in R to plot the shared variants between cell free
by
zx8754
11k
Try this example: library(UpSetR) #example input, 4 samples, 250 variants set.seed(1); d <- data.frame(matrix(sample…
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