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323 results • Page 3 of 7
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60
votes
2
replies
7.0k
views
Tutorial: Table Of Contents To All Review Paper Compilations On Biostar
papers
updated 3 months ago by 39k • written 10.8 years ago by 98k
4
votes
2
replies
6.9k
views
Tutorial: Analyzing Genomewide Association Study Data: A Tutorial Using Plink
plink gwas
updated 3 months ago by 39k • written 11.0 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
26
votes
17
replies
6.8k
views
8 follow
Tutorial: virtualenv - running Python based software in isolation
python virtualenv
updated 8 months ago by 39k • written 8.8 years ago by 5.9k
12
votes
11
replies
6.7k
views
Tutorial: How to upload your RNA-Seq data to NCBI Sequence Read Archive (SRA)
NCBI Bioproject SRA BioSample
updated 25 days ago by 39k • written 6.2 years ago by ★ 2.4k
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
49
votes
1
reply
6.6k
views
Tutorial: Basic normalization, batch correction and visualization of RNA-seq data
edger RNA-seq
updated 3 months ago by 39k • written 2.7 years ago by 72k
15
votes
2
replies
6.5k
views
Tutorial: Genotype And Snp Calling Review Papers
snp
updated 3 months ago by 39k • written 10.8 years ago by 98k
2
votes
0
replies
6.5k
views
Tutorial: How to - Install Python packages in a virtual environment (virtualenv)
ubuntu cutadapt virtualenv python windows
updated 17 days ago by 39k • written 5.5 years ago by ▴ 310
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
15
votes
1
reply
6.4k
views
Tutorial: A compilation of conversion tools for BED, SAM/BAM, psl, pslx, blast tabular and blast xml
psl SAM blast BED
updated 18 days ago by 39k • written 5.6 years ago by ★ 3.0k
15
votes
0
replies
6.4k
views
Tutorial: Introduction To Ngs Bioinformatics By The Bioinformatics Team At The University Of Texas
course training
updated 3 months ago by 39k • written 10.9 years ago by 98k
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
8
votes
12
replies
6.2k
views
Tutorial: Create your own VPN to access work resources from home
tinyproxy OpenVPN VPN
updated 8 weeks ago by 39k • written 7.0 years ago by 13k
14
votes
2
replies
6.2k
views
Tutorial: ChIP-seq analysis tutorial
ChIP-Seq
updated 9 weeks ago by 39k • written 7.8 years ago by ★ 2.9k
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
19
votes
9
replies
6.1k
views
8 follow
Tutorial: Interactive Perl Learning
perl
updated 3 months ago by 39k • written 10.0 years ago by 9.6k
6
votes
0
replies
6.0k
views
Tutorial: Leveraging Flow Order And Flow Signals From Ion Torrent Data
ion-torrent
updated 3 months ago by 39k • written 11.1 years ago by ▴ 360
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
4
votes
1
reply
5.9k
views
Tutorial: Chip-Seq Data Analysis Tutorial
chip-seq
updated 3 months ago by 39k • written 11.1 years ago by ▴ 360
16
votes
6
replies
5.8k
views
Tutorial: How to make your snakefiles self-documenting
snakemake
updated 7 weeks ago by 39k • written 6.6 years ago by ★ 1.7k
23
votes
19
replies
5.8k
views
10 follow
Tutorial: MutScan: Detect important mutations by scanning FastQ files directly
fastq mutation cancer target
updated 8 weeks ago by 39k • written 6.7 years ago by ★ 2.4k
20
votes
7
replies
5.7k
views
Tutorial: Showing up and down regulated GO and pathway using enrichR and ggplot2
ggplot2 RNA-Seq R
updated 11 weeks ago by 39k • written 4.6 years ago by ▴ 750
14
votes
7
replies
5.6k
views
Tutorial: Visualization of ChIP-Seq peak overlaps using HOMER mergePeaks and UpSetR
ChIP-Seq peaks R HOMER
updated 11 weeks ago by 39k • written 7.1 years ago by ★ 3.3k
22
votes
2
replies
5.6k
views
Tutorial: Use a workflow management tool to manage your computational pipelines
workflow-management snakemake pipeline
updated 7 weeks ago by 39k • written 6.6 years ago by ★ 2.1k
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
18
votes
2
replies
5.5k
views
Tutorial: Update kraken databases
database kraken k-mer python
updated 23 days ago by 39k • written 6.1 years ago by 5.2k
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
34
votes
15
replies
5.3k
views
6 follow
Tutorial: How to do data cleaning for VCF genetic file
vcf
updated 11 weeks ago by 39k • written 4.0 years ago by ★ 9.3k
13
votes
6
replies
5.3k
views
Tutorial: Trim & align paired-end reads in a single pass
align trim fastq pipe paired-end
updated 8 weeks ago by 39k • written 7.0 years ago by 14k
21
votes
10
replies
5.2k
views
Tutorial: Finding the significance of the overlap between 2 or more gene sets using simulation in R.
tidyverse gene R
updated 11 weeks ago by 39k • written 2.8 years ago by 12k
9
votes
2
replies
5.2k
views
Tutorial: From Data import to Normalization in Microarray Analysis using in R (Part I)
gene R
updated 8 weeks ago by 39k • written 7.0 years ago by ▴ 140
7
votes
0
replies
5.1k
views
Tutorial: Mothur Analyzing 16S Of Ngs High Through-Put Sequencing
next-gen
updated 3 months ago by 39k • written 11.0 years ago by ▴ 120
12
votes
31
replies
5.1k
views
6 follow
Tutorial: gene set filter/selection for training ab initio annotation tools
geneset genome gene abinitio
updated 12 weeks ago by 39k • written 3.8 years ago by 7.9k
3
votes
2
replies
5.0k
views
Tutorial: Reorder Vcf Files
vcf
updated 3 months ago by 39k • written 10.1 years ago by ▴ 60
12
votes
1
reply
5.0k
views
Tutorial: scRNA-seq CITE-seq-count bioinformatics
CITE-seq-count scRNA-seq RNA-Seq
updated 11 weeks ago by 39k • written 3.2 years ago by 4.8k
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
10
votes
0
replies
4.9k
views
Tutorial: Yes .. BBMap can do that! - Part II randomreads (read simulation), demuxbyname/filterbyname, bbsplit (read binning/decontamination) and pileup (cover…
bbmap
updated 11 weeks ago by 39k • written 2.4 years ago by 129k
12
votes
7
replies
4.8k
views
Tutorial: STARsolo config for 10x Chromium v1, v2, v3
Chromium 10x STARsolo STAR
updated 11 weeks ago by 39k • written 2.7 years ago by 85k
6
votes
11
replies
4.8k
views
6 follow
Tutorial: Add count numbers to headers in a fasta file
genome
updated 3 months ago by 39k • written 6.5 years ago by ▴ 50
12
votes
1
reply
4.7k
views
Tutorial: RepSeq data processing and analysis
immunology tcr repseq sequencing repertoire
updated 7 months ago by 39k • written 7.8 years ago by 3.5k
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
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
16
votes
9
replies
4.7k
views
Tutorial: TCGA transcriptome data to R (DESeq2)
TCGA GDC DESeq2
updated 11 months ago by ▴ 70 • written 18 months ago by ★ 1.1k
3
votes
0
replies
4.6k
views
Tutorial: Comparing 454, Iontorrent And Miseq
454 miseq ion-torrent
updated 3 months ago by 39k • written 11.0 years ago by 98k
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
7
votes
0
replies
4.5k
views
Tutorial: How To Perform A Hierarchical Clustering Using Interactive Heatmaps From Gitools?
clustering
updated 3 months ago by 39k • written 9.2 years ago by ▴ 990
6
votes
10
replies
4.4k
views
Tutorial: Differentially methylated regions: Easy & Fast Identification and ANnoTation
DMR dna-methylation
updated 11 weeks ago by 39k • written 5.3 years ago by ▴ 360
14
votes
9
replies
4.3k
views
6 follow
Tutorial: Setting up Aspera Connect (ascp) on Linux and macOS
aspera ascp
updated 4 weeks ago by • 0 • written 11 months ago by 72k
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
323 results • Page 3 of 7
Recent Votes
A: Problem regarding Software installation.
Answer: How To Predict Pseudogenes In A Genome
A: How To Predict Pseudogenes In A Genome
A: How To Predict Pseudogenes In A Genome
A: How To Predict Pseudogenes In A Genome
How To Predict Pseudogenes In A Genome
C: parsing fasta file
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Teacher to antonioggsousa 2.8k
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Recent Replies
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…
Comment: Getting same value for start and end position, "DNA methylation" by ATpoint 72k
That's a comment, not an answer, please use `ADD COMMENT`.
Comment: Getting same value for start and end position, "DNA methylation" by bioinfo_ga ▴ 50
Are you working on bisulphite kind of data or chipseq ????
Answer: How to calculate TPM from featureCounts output by bioinfo_ga ▴ 50
hi , You can use a python package rnanorm [https://pypi.org/project/rnanorm/]. The input required are your read count values from feature …
Comment: How to split a scRNA reads BAM or FASTQ file to a separate file for each cell by by biofalconch ▴ 580
Hey, if you arelady have the barcodes, you could use samtools `samtools view -h -b -f CB:Z:TAAGAGATCCTATGTT > TAAGAGATCCTATGTT.bam` Hope…
Answer: How to split a scRNA reads BAM or FASTQ file to a separate file for each cell by by biofalconch ▴ 580
Here is a code that should work, but just like everyone else in the comments I'm a little confused why would you need to separate them: …
Comment: Make a BedGraph file by kirillkirilenko ▴ 10
It works, thank you!
Comment: CNNScoreVariants Error by Pierre Lindenbaum 154k
check you have a complete environment for GATK , including the python module "keras". https://gatk.broadinstitute.org/hc/en-us/articles/360…
Comment: How to split a scRNA reads BAM or FASTQ file to a separate file for each cell by by Cathal • 0
Did you have any luck in splitting the BAM file based on the 10x cell barcode? I would like to split a BAM file based to only include 5 spe…
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