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357 results • Page 3 of 8
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Tutorial: Creating chromosome karyotype plot with R and ggplot2
ggplot2 R chromosome karyotype
updated 19 days ago by 39k • written 5.8 years ago by ★ 3.3k
42
votes
6
replies
19k
views
Tutorial: Greatly speed up conda by using mamba
software
updated 16 months ago by ▴ 40 • written 2.2 years ago by 12k
31
votes
6
replies
9.5k
views
Tutorial: A simple tutorial for a complex ComplexHeatmap
clustering pam arthritis ComplexHeatmap
updated 11 weeks ago by 39k • written 3.0 years ago by 85k
11
votes
6
replies
4.6k
views
Tutorial: sharing some naive codes for microarray normalization in R with whom are too new in R alike me
R
updated 10 months ago by 39k • written 7.3 years ago by ★ 4.2k
20
votes
6
replies
5.0k
views
Tutorial: Open Targets and programmatic access
open-targets disease API drug
updated 11 weeks ago by 39k • written 6.7 years ago by ★ 5.2k
5
votes
5
replies
6.1k
views
Tutorial: use firehose_get to download TCGA data
tcga RNA-Seq
updated 18 days ago by 39k • written 5.6 years ago by ▴ 130
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 8 months ago by 39k • written 9.5 years ago by ★ 1.2k
20
votes
5
replies
6.3k
views
Tutorial: Analysis of single-cell RNA-seq data
single-cell RNA-Seq
updated 8 weeks ago by 39k • written 6.9 years ago by ★ 1.5k
15
votes
5
replies
11k
views
6 follow
Tutorial: Easy way to do GO enrichment in R
enrichr RNA-Seq gene R
updated 12 weeks ago by 39k • written 5.5 years ago by ▴ 750
16
votes
5
replies
8.5k
views
Tutorial: Using The Biomart Perl Api For Simple Queries
api perl biomart
updated 3 months ago by 39k • written 10.7 years ago by 20k
2
votes
5
replies
2.0k
views
Tutorial: Building OMA database on SGE
oma
updated 8 weeks ago by 39k • written 7.0 years ago by ▴ 10
12
votes
5
replies
7.7k
views
Tutorial: How To Install BioPerl Without Root Privileges in Ubuntu/Linxu
bioperl
updated 8 weeks ago by 39k • written 7.0 years ago by ★ 9.3k
12
votes
5
replies
1.9k
views
Tutorial: FASTA file split
fasta
updated 11 weeks ago by 39k • written 3.0 years ago by 7.9k
9
votes
5
replies
2.0k
views
Tutorial: What is new in samtools release 1.5 [Solstice Release] (21st June 2017)
samtools
updated 20 days ago by 39k • written 5.9 years ago by 98k
64
votes
5
replies
6.8k
views
10 follow
Tutorial: Informatics of RNA-Seq.
next-gen RNA-Seq
updated 7 months ago by 39k • written 7.8 years ago by 12k
15
votes
5
replies
14k
views
Tutorial: How to create a mutation lolliplot with GenVisR
bioconductor graphics R genvisr
updated 8 weeks ago by 39k • written 7.0 years ago by 20k
10
votes
5
replies
19k
views
Tutorial: Y-DNA and mtDNA Haplogroup Predictor
haplogroup
updated 11 weeks ago by 39k • written 4.9 years ago by ★ 9.3k
70
votes
5
replies
10k
views
8 follow
Tutorial: Bioinformatics For Metagenomic Analyses
QC taxonomy metagenomics
updated 14 months ago by 39k • written 9.2 years ago by ★ 1.8k
29
votes
5
replies
6.0k
views
Tutorial: Gnu Parallel Tutorial
parallel gnu-parallel
updated 3 months ago by 39k • written 9.7 years ago by ★ 4.3k
28
votes
4
replies
3.8k
views
Tutorial: Modern Statistics for Modern Biology
statistics
updated 11 weeks ago by 39k • written 4.4 years ago by 26k
10
votes
4
replies
2.9k
views
Tutorial: CorLevelPlot - Visualise correlation results, e.g., clinical parameter correlations
correlation corlevelplot
updated 16 days ago by 39k • written 5.3 years ago by 85k
1
vote
4
replies
3.0k
views
Tutorial: How to install C++ compilers/make from GNU for Gromacs?
Gromacs Cpp-compilers GNU
updated 8 weeks ago by 39k • written 7.0 years ago by ▴ 10
6
votes
4
replies
7.0k
views
Tutorial: Overlay Multiple Tracks In Ucsc Browser [Quick Minimal Tutorial]
visualization ChIP-seq RNA-seq ucsc-genome-browser bigwig
updated 3 months ago by 39k • written 10.2 years ago by 11k
34
votes
4
replies
5.6k
views
Tutorial: [Beginner] Introduction to bioinformatics file types
fastq fasta bed SAM
updated 6 months ago by 39k • written 7.9 years ago by ▴ 370
15
votes
4
replies
4.2k
views
Tutorial: RNASeq tutorial for gene differential expression analysis
Transcriptomics bioconductor RNA-Seq R
updated 11 weeks ago by 39k • written 2.8 years ago by ▴ 310
3
votes
4
replies
3.4k
views
Tutorial: Gene Set Enrichment Analysis on T-BioInfo
gene RNA-Seq
updated 10 days ago by 39k • written 4.6 years ago by ▴ 340
19
votes
4
replies
8.5k
views
Tutorial: Rna Seq Experimental Design For Measuring Differential Gene Expression
RNA-seq
updated 3 months ago by 39k • written 10.3 years ago by 98k
20
votes
4
replies
2.3k
views
Tutorial: Bash One-liners collection on Github
bash linux shell
updated 11 weeks ago by 39k • written 4.1 years ago by ▴ 180
12
votes
4
replies
4.7k
views
Tutorial: *FREE course* Bioinformatics for Biologists: An Introduction to Linux, Bash Scripting, and R
linux R
updated 3 months ago by 39k • written 2.3 years ago by ▴ 120
32
votes
4
replies
6.6k
views
Tutorial: Fast LD computation from VCF files using tomahawk
ld snp vcf vcftools bcftools
updated 11 weeks ago by 39k • written 4.6 years ago by ★ 1.5k
20
votes
4
replies
8.2k
views
Tutorial: DE analysis by edgeR
RNA-Seq R edgeR
updated 8 weeks ago by 39k • written 6.7 years ago by ★ 4.2k
12
votes
4
replies
1.9k
views
Tutorial: Tutorials for Library Normalization in DESeq2 and EdgeR
EdgeR DESeq2
updated 10 weeks ago by 39k • written 5.7 years ago by ▴ 590
3
votes
4
replies
4.0k
views
Tutorial: gencore: a tool to reduce sequencing noises by generating consensus reads
consensus OpenGene sequencing-noise
updated 13 days ago by 39k • written 5.1 years ago by ★ 2.4k
10
votes
4
replies
9.4k
views
Tutorial: Using the MinION MinKNOW software on Ubuntu 1604
long-reads oxford-nanopore minion
updated 11 weeks ago by 39k • written 3.9 years ago by 4.8k
1
vote
4
replies
3.0k
views
Tutorial: Applying machine learning to NGS transcriptomic data
next-gen RNA-Seq
updated 13 days ago by 39k • written 5.1 years ago by ▴ 340
20
votes
4
replies
13k
views
Tutorial: How To Install A Specific Cdf Package For Use In Bioconductor
bioconductor affymetrix
updated 3 months ago by 39k • written 10.2 years ago by 20k
23
votes
4
replies
6.4k
views
Tutorial: Using EnrichedHeatmap for visualization of NGS experiments
heatmap chip-seq atac-seq EnrichedHeatmap
updated 11 weeks ago by 39k • written 3.8 years ago by 72k
0
votes
3
replies
48k
views
Tutorial: Installation VMD on LINUX_64
gromacs VMD
updated 8 weeks ago by 39k • written 7.0 years ago by ▴ 10
13
votes
3
replies
4.7k
views
Tutorial: Video: Visualization of whole genome DNA methylation data in IGB
Bismark BS-Seq RNA-Seq IGB
updated 12 months ago by 39k • written 8.2 years ago by ▴ 860
4
votes
3
replies
4.0k
views
Tutorial: How to get full taxonomy classification using taxize and myTAI
taxonomy R
updated 11 weeks ago by 39k • written 5.2 years ago by ★ 3.9k
9
votes
3
replies
3.9k
views
Tutorial: Ht Sequence Analysis With R And Bioconductor By The Bioinformatics Center At Uc Riverside
bioconductor
updated 3 months ago by 39k • written 10.8 years ago by 98k
2
votes
3
replies
2.4k
views
Tutorial: It's about the journey, and not the destination
R network
updated 24 days ago by 39k • written 6.2 years ago by ★ 1.2k
18
votes
3
replies
12k
views
Tutorial: bedGraphToBigWig Tutorial and Report
bedGraphToBigWig
updated 10 months ago by 39k • written 7.3 years ago by ★ 9.3k
6
votes
3
replies
5.4k
views
Tutorial: High Throughput Sequence Analysis With R And Bioconductor
bioconductor
updated 3 months ago by 39k • written 10.9 years ago by 98k
5
votes
3
replies
4.7k
views
Tutorial: bam2rpkm by bedtools
bam RNA-Seq bedtools rpkm
updated 11 weeks ago by • 0 • written 5.6 years ago by ▴ 130
15
votes
3
replies
4.3k
views
Tutorial: NCBI blast tutorial
ncbi blast
updated 8 weeks ago by 39k • written 7.1 years ago by 11k
3
votes
3
replies
1.7k
views
Tutorial: Generating count matrix for STAR counts in GDC v32.0 for RNA-Seq
GDC TCGABiolinks STAR
updated 3 months ago by 39k • written 14 months ago by ★ 3.1k
8
votes
3
replies
2.5k
views
Tutorial: Free online interactive Ensembl training
ensembl training genome
updated 10 months ago by 39k • written 7.3 years ago by 23k
51
votes
3
replies
22k
views
Tutorial: Sam File Format - Lesser Known Tips And Tricks
sam
updated 3 months ago by 39k • written 10.4 years ago by ▴ 300
2
votes
3
replies
1.7k
views
Tutorial: Help demonstrate reproducibility in bioinformatics with the GA4GH's tool execution Challenge
GA4GH Docker CWL Rabix
updated 7 weeks ago by 39k • written 6.3 years ago by ▴ 20
357 results • Page 3 of 8
Recent Votes
Answer: I need help with a blast command, please help
Answer: I need help with a blast command, please help
Answer: NCBI API, Perl
Get a list of genes associated with a drug in 1 min
Answer: Getting species names and taxa id from assembly accession number
Pseudogenes-Can we use them?
Comment: If RNA-seq includes miRNA genes then why are there miRNA specific pipelines?
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Comment: I need help with a blast command, please help by neto.pvp • 0
Thank you very much!! I'm new to this subject and I believe your answer gave me a great idea of where to go next, thanks again!!
Answer: NCBI API, Perl by GenoMax 129k
You are likely best served by using `NCBI datasets` ([**LINK**][1]) or `EntrezDirect` ([**LINK**][2]) command line tools. If you want to …
Comment: Obtain a --gene-trans-map file after rnaSPAdes by GenoMax 129k
You could try to create one: https://groups.google.com/g/trinityrnaseq-users/c/qPbWnLl4iY0 While this is from an unrelated software the so…
Comment: CNNScoreVariants Error by Pierre Lindenbaum 154k
that is another question
Comment: Difference between USCS exon coordinates and ensembl by amy__ ▴ 50
Hi @atpoint, I went to http://genome.ucsc.edu/cgi-bin/hgTables and did: 1. ![enter image description here][1] then: 2. ![enter image…
Comment: should non-protein-coding rna(e.g. lncRNA) be removed in RNA-Seq differential ex by Kermit ▴ 80
See also: https://www.biostars.org/p/9535550/#9536086
Answer: Getting species names and taxa id from assembly accession number by MirianT_NCBI ▴ 590
Hi, As an alternative, you could use [NCBI Datasets][1] for this task. NCBI Datasets allows users to retrieve metadata reports in JSON or…
Comment: Optimum setting for local blastp for ~10K sequences by sodiumnitrate ▴ 20
Thank you for the info! It turned out that running all 10k at once is actually faster than running one or two at a time!
Answer: Installation of PPFinder by GenoMax 129k
Since the software is still [**listed on the Brent lab**][1] website your best bet would be to email the investigator and ask that they fix…
Comment: How to calculate TPM from featureCounts output by rpolicastro 12k
If you want to go that route, yes.
Comment: Difference between USCS exon coordinates and ensembl by ATpoint 72k
What did you download from UCSC? 1-off usually means one file is zero-based and the other 1-based. BED files from UCSC are 0-based, Ensembl…
Comment: Alignment of case vs. control from different origin by sativus • 0
Thank you kindly for the explanation, it is highly appreciated. I suppose i was a bit confused as you quite often see people validating the…
Answer: Gene enrichment analysis by nux ▴ 10
Hello. For this you have to select 'hyper' as your method and then provide a complete list of genes which both include the candidate and no…
Comment: CNNScoreVariants Error by bestone ▴ 10
Thank you for replying I updated it worked but it gives another Error A USER ERROR has occurred: Invalid argument ' -V'.
Comment: Impute haplotypes (ImputePipelinePlugin) execution error - PHG by jrodrigu • 0
Thank you so much. I made the suggested changes. However, I still have the same problem. Please check the new log file. https://github.c…
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