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Tutorial:  Slurm and parallelization
slurm
1 hour ago by Juke34 ★ 5.8k
68
votes
76
replies
17k
views
19 follow
Tutorial:  Produce PCA bi-plot for 1000 Genomes Phase III - Version 2
PLINK 1000 PCA genomes Tutorial
6 hours ago by Kevin Blighe 74k
1
vote
0
replies
134
views
Tutorial:  How to: make Camellia sinensis var. sinensis (black tea) custom annotation files for BINGO Cytoscape
bingo cytoscape
9 days ago by Pancreas Pratik ▴ 280
7
votes
1
reply
240
views
Tutorial:  PCR Primer or Primer+Probe design
pcr probe rt-pcr qpcr primer
updated 11 days ago by ★ 10k • written 11 days ago by 74k
107
votes
66
replies
26k
views
20 follow
Tutorial:  [Deprecated] Fast download of FASTQ files from the European Nucleotide Archive (ENA)
Tutorial fastq-dump aspera Fastq ENA
4 days ago by ATpoint 50k
4
votes
0
replies
99
views
Tutorial:  Long Read Genome Assembly Video Series
long-read genome-assembly
10 days ago by pbpanigrahi ▴ 390
0
votes
1
reply
88
views
Tutorial:  Add Customized Filters in GDC
gdc
updated 16 days ago by 16k • written 16 days ago by ▴ 370
50
votes
26
replies
4.8k
views
11 follow
Tutorial:  Generating consensus sequence from bam file
bam consensus fasta Tutorial
updated 17 days ago by ▴ 160 • written 2.3 years ago by 14k
20
votes
1
reply
3.4k
views
Tutorial:  Methylation Analysis Tutorial in R_part1
Tutorial cancer methylation R
updated 18 days ago by ▴ 30 • written 8 months ago by ★ 1.5k
11
votes
20
replies
6.2k
views
10 follow
Tutorial:  Associating VDJ clonotyping data with scRNA-seq in Seurat
seurat single cell RNA-Seq TCR Tutorial
21 days ago by jared.andrews07 ★ 10k
4
votes
2
replies
926
views
Tutorial:  Apply beagle5.0 to make imputation and phasing under CentOS and PBS
beagle 5.0 Tutorial
updated 22 days ago by 102k • written 2.0 years ago by ★ 8.7k
43
votes
3
replies
32k
views
Tutorial:  Mapping Reads With Bwa And Bowtie
bowtie bwa tutorial Tutorial
updated 29 days ago by • 0 • written 9.2 years ago by ▴ 520
11
votes
7
replies
1.9k
views
6 follow
Tutorial:  Installing an updated R version (>=4.0) using conda
R software error Tutorial
17 hours ago by Nitin Narwade ▴ 680
22
votes
11
replies
5.7k
views
7 follow
Tutorial:  Using R in Conda
R Tutorial
updated 5 weeks ago by ★ 3.0k • written 11 months ago by ▴ 330
15
votes
4
replies
5.3k
views
6 follow
Tutorial:  installing samtools with conda - overcoming two common errors
samtools conda Tutorial
updated 6 weeks ago by 50k • written 10 months ago by ▴ 80
86
votes
16
replies
23k
views
18 follow
Tutorial:  Heatmaps in R
heatmap R Tutorial
updated 6 weeks ago by • 0 • written 4.9 years ago by 24k
6
votes
1
reply
270
views
Tutorial:  Extracting genomic feature sequences from GTF/GFF files with AGAT
extract GTF GFF sequence
updated 8 weeks ago by 49k • written 8 weeks ago by ★ 5.8k
22
votes
4
replies
2.9k
views
Tutorial:  A simple tutorial for a complex ComplexHeatmap
complexheatmap clustering arthritis pam Tutorial
updated 8 weeks ago by ▴ 60 • written 13 months ago by 74k
68
votes
38
replies
21k
views
22 follow
Tutorial:  Extract Total Non-Overlapping Exon Length Per Gene With Bioconductor
rna-seq bioconductor fpkm Forum Tutorial
updated 9 weeks ago by • 0 • written 7.7 years ago by ★ 7.4k
69
votes
1
reply
45k
views
Tutorial:  How To Ask Good Questions On Technical And Scientific Forums
tutorial Tutorial
written 8.0 years ago by 11k
6
votes
0
replies
339
views
Tutorial:  Pipes in R: An introduction and some advanced tips and tricks.
R
11 weeks ago by rpolicastro 5.3k
228
votes
175
replies
69k
views
72 follow
Tutorial:  Survival analysis of TCGA patients integrating gene expression (RNASeq) data
RNA-Seq TCGA Survival Tutorial
updated 11 weeks ago by 33k • written 5.9 years ago by ★ 4.4k
13
votes
0
replies
1.1k
views
Tutorial:  Greatly speed up conda by using mamba
software
12 weeks ago by rpolicastro 5.3k
6
votes
0
replies
239
views
Tutorial:  data.frames in R: How vectorization can save you time and heartache
R
11 weeks ago by rpolicastro 5.3k
7
votes
1
reply
233
views
Tutorial:  Split a 'linearised' (flattened) FASTA sequence into multi-line using AWK
awk fasta Tutorial
3 months ago by Kevin Blighe 74k
10
votes
6
replies
1.0k
views
Tutorial:  Finding the significance of the overlap between 2 or more gene sets using simulation in R.
R tidyverse gene Tutorial
updated 3 months ago by ▴ 740 • written 9 months ago by 5.3k
12
votes
2
replies
317
views
Tutorial:  Factors in R - How do they work, and how did I break my data?
R Tutorial
11 weeks ago by rpolicastro 5.3k
144
votes
34
replies
50k
views
31 follow
Tutorial:  Tools For Metagenomic Data Analysis
metagenomics next-gen tutorial Tutorial
updated 3 months ago by ▴ 120 • written 8.6 years ago by ★ 1.6k
4
votes
2
replies
1.2k
views
Tutorial:  *FREE course* Bioinformatics for Biologists: An Introduction to Linux, Bash Scripting, and R
R linux bioinformatics Tutorial
updated 3 months ago by • 0 • written 4 months ago by ▴ 40
14
votes
2
replies
969
views
Tutorial:  Methylation Analysis Tutorial in R_part2
methylation RNA-Seq R cancer Tutorial
3 months ago by Hamid Ghaedi ★ 1.5k
4
votes
0
replies
661
views
Tutorial:  Building mosdepth on macOS
mosdepth nim Tutorial
10 weeks ago by ATpoint 50k
73
votes
32
replies
10k
views
17 follow
Tutorial:  Enrichment Analysis, Clustering and Scoring with pathfindR
R pathway enrichment active subnetwork Tutorial
updated 3 months ago by ▴ 10 • written 3.0 years ago by ★ 1.1k
11
votes
7
replies
6.0k
views
Tutorial:  Integrating VDJ sequencing data with Seurat
Seurat clonotyping VDJ sc-RNAseq Tutorial
updated 4 months ago by 7.2k • written 2.0 years ago by ▴ 260
231
votes
32
replies
69k
views
22 follow
Tutorial:  Cheat Sheet For One-Based Vs Zero-Based Coordinate Systems
coordinates tutorial Tutorial
updated 4 months ago by ▴ 10 • written 7.6 years ago by 19k
43
votes
9
replies
3.1k
views
9 follow
Tutorial:  Gene Set Enrichment Analysis
microarray RNA-Seq Tutorial enrichment GSEA
26 days ago by Hamid Ghaedi ★ 1.5k
3
votes
0
replies
707
views
Tutorial:  Yes .. BBMap can do that! - Part III clumpify (mark (and dedupe) duplicates without alignment), mutate (create mutant genomes) and other miscellaneou…
bbmap Tutorial
4 months ago by GenoMax 102k
6
votes
0
replies
1.3k
views
Tutorial:  Yes .. BBMap can do that! - Part II randomreads (read simulation), demuxbyname/filterbyname, bbsplit (read binning/decontamination) and pileup (cover…
bbmap Tutorial
4 months ago by GenoMax 102k
7
votes
0
replies
803
views
Tutorial:  Yes .. BBMap can do that! - Part I : bbmap (aligner), bbduk (scan/trim), repair (fix PE reads) and reformat (format conversions)
bbmap Tutorial
4 months ago by GenoMax 102k
8
votes
1
reply
631
views
Tutorial:  Guidelines for the computational analysis of single-cell RNA sequencing data
scRNA-seq Tutorial
updated 5 months ago by 50k • written 5 months ago by ★ 11k
34
votes
9
replies
9.0k
views
10 follow
Tutorial:  Resources for flow cytometry bioinformatics
tutorial flow cytometry Tutorial single cell
written 7.2 years ago by ★ 1.9k
2
votes
0
replies
766
views
Tutorial:  Best Python Course
python Tutorial ad
updated 5 months ago by 16k • written 5 months ago by ▴ 20
0
votes
1
reply
1.7k
views
Tutorial:  Getting the lineage of an organism from NCBI taxonomy data
taxonomy python biosql Tutorial
updated 6 months ago by • 0 • written 2.9 years ago by ▴ 250
71
votes
13
replies
12k
views
12 follow
Tutorial:  Exploring cancer mutation data portals
Cancer Data Portal Mutation TCGA ICGC Tutorial
6 months ago by Malachi Griffith 19k
4
votes
10
replies
3.0k
views
Tutorial:  Differentially methylated regions: Easy & Fast Identification and ANnoTation
dna methylation Tutorial DMR
6 months ago by dec986 ▴ 270
41
votes
6
replies
9.7k
views
Tutorial:  Annotating TCGA MAFs with the latest Ensembl/Gencode transcripts
maf vcf ensembl tcga somatic Tutorial
6 months ago by Cyriac Kandoth 5.6k
5
votes
2
replies
2.9k
views
Tutorial:  bam2rpkm by bedtools
RNA-Seq bam rpkm bedtools Tutorial
updated 6 months ago by 50k • written 3.6 years ago by ▴ 110
16
votes
11
replies
4.8k
views
Tutorial:  How to Use Biostars, Part II: Post types, Deleting, (Un)Subscribing, Linking and Bookmarking
meta how-to documentation Tutorial
6 months ago by Ram 33k
40
votes
33
replies
5.1k
views
8 follow
Tutorial:  How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
meta how-to documentation Tutorial
6 months ago by Ram 33k
83
votes
6
replies
14k
views
6 follow
Tutorial:  Creating workflows with snakemake and conda
snakemake conda workflow Tutorial
updated 7 months ago by ▴ 30 • written 2.8 years ago by 14k
15
votes
40
replies
12k
views
16 follow
Tutorial:  Easy way to run easily orthoMCL (Copy & paste)
run easy orthomcl all-v-all mcl Tutorial
updated 7 months ago by ★ 1.8k • written 5.0 years ago by ▴ 140
334 results • Page 1 of 7
Recent Votes
Intalling Ensembl VEP in windows 10
Comment: On whether or not to normalize scRNAseq expression like qPCR
Comment: On whether or not to normalize scRNAseq expression like qPCR
Comment: Problem with Deseq2
C: fastq to fastq.gz conversion for using HISAT2
DESeq2: One or more designs for contrasts of interest
Comment: how to delete a file 3 months after downloading it in python
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Recent Awards • All
Scholar to wormball • 0
Popular Question to A ★ 3.9k
Popular Question to pixie@bioinfo ★ 1.4k
Supporter to Manuela ▴ 30
Scholar to Emily_Ensembl 22k
Scholar to Alex Reynolds 32k
Popular Question to BioinformaticsLad ▴ 170
Recent Replies
Comment: HELP! extract variants for individual sample IDs in a multisample VCF by julia.zollner • 0
Hello Ram, that is really helpful. Thank you so much. Ok, I need to familiarise myself with R as well then, makes sense. I'll persist with …
Comment: Install R package fgsea: Error in download.file by ATpoint 50k
what exactly does that do?
Comment: Locating a single cell data set by ATpoint 50k
I think the statement is clear. Email them, and if they do not reply then there is nothing you can do about it. This is why this whole "ava…
Comment: Locating a single cell data set by A ★ 3.9k
This part I found for that four patients scRNA-seq data from four patients which were previously published were kindly provided by Pro…
Answer: Locating a single cell data set by ATpoint 50k
> DATA AVAILABILITY STATEMENT. > > scRNA-seq data from four patients which were previously published were > kindly provided by Prof. Andr…
Comment: Problem with Deseq2 by ATpoint 50k
I do not think filtering is a general best practice. From the vignette: > While it is not necessary to pre-filter low count genes before r…
Comment: Problem with Deseq2 by ATpoint 50k
> every gene contains at least one zero, cannot compute log geometric means How can this be, so what kind of data is this?
Comment: Is it correct to merge two raw CEL datasets and then perform quality control, ba by Sib ▴ 20
Thanks for your answer. So what is the reason for that? For example, in background correction, the background intensities for all probs are…
Answer: Problem with Deseq2 by Antonio R. Franco ★ 4.7k
It seems that you have data with zero counts. Filter to get rid of them. DESeq2 best practices recommend a filtering of low counts reads be…
Answer: Differential Gene expression between low survival and high survival samples from by Bagher • 0
Thanks a lot Mr.Hamid Ghaedi but there was another problem : > data <- assay(luad.exp) Error in h(simpleError(msg, call)) : error…
Comment: Unexpected blastx results by langziv ▴ 20
I'm studying a Myxozoa species, and I run it's sequences against the blastn and blastx databases from the NCBI website.
Comment: How to get chromosomal position of list of RS number(GRCh38)? by yoosefyud ▴ 40
Thanks a lot Emily. Using biomart completely solved my problem.
Comment: Use part of the name of the input file in the Snakemake by cpad0112 16k
use `glob_wildcards` Example directory structure: $ tree . . ├── list.smk ├── SRR13510812_1.fastq ├── SRR13510812_2.…
Comment: For loop STAR not working by cpad0112 16k
probably, your ssh session is getting timed out. try using screen or tmux to keep the process in background. Even if it disconnects from t…
Answer: Choosing the right pathways among gene set enrichment analysis results by Jean-Karim Heriche 24k
Statistical significance doesn't mean biological relevance so one alternative approach is to rank the pathways by score and look at whether…
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