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353 results • Page 2 of 8
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14
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Tutorial: Video-tutorials: How to get started using EaSeq for interactive ChIP-seq data visualization and exploration (Windows)
ChIP-Seq visualization EaSeq Tutorial Windows
6.7 years ago by Mads Lerdrup ▴ 460
30
votes
14
replies
14k
views
8 follow
Tutorial: Installation of the MuSiC suite on unsupported Linux distributions
install genome music linux smg Tutorial
6.3 years ago by Cyriac Kandoth 5.8k
74
votes
14
replies
13k
views
15 follow
Tutorial: List Of Bioinformatics Books
bioinformatics tutorial books Tutorial
updated 4 months ago by 37k • written 9.7 years ago by 9.5k
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 • 0 • written 11 months ago by ▴ 30
63
votes
13
replies
12k
views
11 follow
Tutorial: Tutorial (How to analyze) on Whole Exome sequencing. Common Errors. Best Practices.
muTect GATK Picard Exome
updated 11 months ago by 37k • written 8.2 years ago by ★ 2.3k
17
votes
13
replies
1.6k
views
Tutorial: Screen shots of text (please don't)!
meta Forum Tutorial
5.8 years ago by Michael Dondrup 52k
74
votes
13
replies
65k
views
10 follow
Tutorial: Machine Learning For Prediction of Relapse in Cancer - Part 2 - Building A Random Forest Classifier
r cancer classification
updated 3 months ago by 37k • written 9.2 years ago by ★ 1.2k
3
votes
13
replies
8.8k
views
Tutorial: Merging multiple vcf files into Single vcf file
vcf merge bcftools Tutorial
written 3.9 years ago by ▴ 140
24
votes
13
replies
5.7k
views
9 follow
Tutorial: How to get FASTQ reads from the Short Read Archive (SRA)
fastq sra
updated 12 months ago by ★ 1.1k • written 15 months ago by 96k
76
votes
13
replies
14k
views
12 follow
Tutorial: Exploring cancer mutation data portals
TCGA Cancer ICGC Data-Portal Mutation
updated 15 months ago by 37k • written 8.7 years ago by 19k
31
votes
12
replies
26k
views
7 follow
Tutorial: So What Does The Sequence Duplication Rate Really Mean In A Fastqc Report
Tutorial qualitycontrol fastqc tutorial
updated 14 months ago by 37k • written 9.3 years ago by 96k
8
votes
12
replies
6.0k
views
Tutorial: Create your own VPN to access work resources from home
VPN OpenVPN tinyproxy Tutorial
6.7 years ago by John 13k
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
6
votes
11
replies
4.3k
views
6 follow
Tutorial: Add count numbers to headers in a fasta file
genome Blog Tutorial
updated 21 months ago by 34k • written 6.1 years ago by ▴ 50
16
votes
11
replies
13k
views
7 follow
Tutorial: retrieve full TCGA datasets from cBioportal with R
cBioportal TCGA data_retrieval RNASeq R Tutorial
updated 3.7 years ago by ▴ 30 • written 6.3 years ago by ★ 4.6k
12
votes
11
replies
6.5k
views
Tutorial: How to upload your RNA-Seq data to NCBI Sequence Read Archive (SRA)
NCBI SRA Bioproject BioSample Tutorial
updated 5.5 years ago by ▴ 20 • written 5.9 years ago by ★ 2.4k
24
votes
10
replies
55k
views
9 follow
Tutorial: Installing an updated R version (>=4.0) using conda
Tutorial error software R
updated 8 months ago by • 0 • written 22 months ago by ★ 1.3k
6
votes
10
replies
4.2k
views
Tutorial: Differentially methylated regions: Easy & Fast Identification and ANnoTation
dna methylation Tutorial DMR
2.1 years ago by dec986 ▴ 340
9
votes
9
replies
3.6k
views
Tutorial: Determine % of reference genome covered by aligned SAM/BAM
ngs reference coverage Tutorial
updated 5.4 years ago by 102k • written 5.4 years ago by 84k
19
votes
9
replies
6.0k
views
8 follow
Tutorial: Interactive Perl Learning
Tutorial perl tutorial
updated 16 months ago by 37k • written 9.6 years ago by 9.5k
65
votes
9
replies
47k
views
7 follow
Tutorial: Reference Assembly - Mapping Reads To A Reference Genome
mapping samtools bwa reference Tutorial
updated 16 months ago by 37k • written 9.6 years ago by ★ 3.0k
40
votes
9
replies
10k
views
10 follow
Tutorial: Resources for flow cytometry bioinformatics
single-cell Tutorial flow-cytometry
9 weeks ago by Ahill ★ 1.9k
13
votes
9
replies
3.5k
views
Tutorial: TCGA transcriptome data to R (DESeq2)
TCGA GDC DESeq2
updated 7 months ago by ▴ 40 • written 14 months ago by ★ 1.1k
8
votes
9
replies
10k
views
Tutorial: Extracting subset of records from FASTA/FASTQ files based on exact/pattern matches of IDs (ONE-LINERS)
Tutorial fasta fastq
updated 16 months ago by 37k • written 8.8 years ago by ★ 1.8k
17
votes
9
replies
4.2k
views
Tutorial: Finding the significance of the overlap between 2 or more gene sets using simulation in R.
R tidyverse gene Tutorial
updated 16 months ago by ★ 1.1k • written 2.4 years ago by 10k
31
votes
9
replies
22k
views
11 follow
Tutorial: installing samtools with conda - overcoming two common errors
samtools conda Tutorial
updated 8 months ago by • 0 • written 2.5 years ago by ▴ 140
23
votes
8
replies
4.8k
views
Tutorial: A Practical (And Opinionated) Guide To Analyzing Human Methylation 450K Data
450K methylation
updated 13 months ago by 37k • written 8.4 years ago by 24k
99
votes
8
replies
26k
views
8 follow
Tutorial: Guide to TCGA data
TCGA cancer tools RNA-Seq clinical Tutorial
updated 6.2 years ago by ▴ 250 • written 6.9 years ago by ★ 1.1k
30
votes
8
replies
10k
views
7 follow
Tutorial: How To Create A Bioinformatics Pipeline Using Spotify !
bioinformatics pipeline python tutorial Tutorial
updated 8 months ago by 37k • written 8.8 years ago by ▴ 800
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 37k • written 8.6 years ago by 19k
37
votes
8
replies
8.6k
views
10 follow
Tutorial: Methylation Analysis Tutorial in R_part1
cancer Tutorial R methylation
updated 8 weeks ago by ★ 1.1k • written 2.3 years ago by 2.8k
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
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 37k • written 7.6 years ago by ★ 2.1k
10
votes
7
replies
751
views
Tutorial: Sequence Alignment from Scratch with BWA
alignment bwa DNA
4 days ago by barslmn ★ 1.2k
20
votes
7
replies
5.5k
views
Tutorial: Showing up and down regulated GO and pathway using enrichR and ggplot2
RNA-Seq R ggplot2 Tutorial
2.8 years ago by ahmad mousavi ▴ 740
16
votes
7
replies
12k
views
Tutorial: Integrating VDJ sequencing data with Seurat
Seurat clonotyping VDJ sc-RNAseq Tutorial
updated 23 months ago by 8.6k • written 3.6 years ago by ▴ 310
10
votes
7
replies
13k
views
Tutorial: Removing rows with duplicate values based on 1 or more key values - linux awk
awk bash duplicates linux Tutorial
updated 5.4 years ago by 34k • written 5.4 years ago by 84k
10
votes
7
replies
4.2k
views
Tutorial: STARsolo config for 10x Chromium v1, v2, v3
STAR STARsolo 10x Chromium Tutorial
updated 13 months ago by 125k • written 2.4 years ago by 84k
14
votes
7
replies
5.4k
views
Tutorial: Visualization of ChIP-Seq peak overlaps using HOMER mergePeaks and UpSetR
ChIP-Seq R HOMER peaks Tutorial
3.5 years ago by steve ★ 3.3k
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 • 0 • written 23 months ago by ▴ 210
48
votes
7
replies
10k
views
7 follow
Tutorial: Genome Assembly Review Papers
papers assembly tutorial Tutorial
updated 10.0 years ago by 33k • written 10.4 years ago by 96k
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 37k • written 9.2 years ago by ★ 2.6k
67
votes
6
replies
24k
views
7 follow
Tutorial: Rna-Seq Review Papers
papers rna-seq tutorial Tutorial
updated 7.0 years ago by • 0 • written 10.4 years ago by 96k
41
votes
6
replies
16k
views
Tutorial: Greatly speed up conda by using mamba
software
updated 12 months ago by ▴ 40 • written 22 months ago by 10k
60
votes
6
replies
8.8k
views
Tutorial: Minimum Standards For Bioinformatics Command Line Tools
command-line tools bioinformatics Tutorial
updated 11 weeks ago by 37k • written 9.5 years ago by 9.5k
41
votes
6
replies
11k
views
Tutorial: Annotating TCGA MAFs with the latest Ensembl/Gencode transcripts
maf vcf ensembl tcga somatic Tutorial
2.1 years ago by Cyriac Kandoth 5.8k
13
votes
6
replies
5.1k
views
Tutorial: Trim & align paired-end reads in a single pass
trim align paired-end fastq pipe Tutorial
6.6 years ago by dariober 14k
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 37k • written 7.0 years ago by ★ 4.1k
29
votes
6
replies
21k
views
Tutorial: Transforming And Manipulating Color Space Reads
conversion solid
updated 4 months ago by 37k • written 10.8 years ago by 96k
31
votes
6
replies
8.0k
views
Tutorial: A simple tutorial for a complex ComplexHeatmap
complexheatmap clustering arthritis pam Tutorial
17 months ago by Kevin Blighe 84k
353 results • Page 2 of 8
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: Can someone help me search the minimal value of a two column csv file with a sin by seidel 10k
You want the minimum value of the second column of a csv file? You could use `sort` like so: cat foo.txt 0.24380519999999706,4…
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.
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