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379 results • Page 4 of 8
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12
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7
replies
5.3k
views
Tutorial: STARsolo config for 10x Chromium v1, v2, v3
Chromium 10x STARsolo STAR
updated 6 months ago by 40k • written 3.0 years ago by 86k
9
votes
2
replies
5.3k
views
Tutorial: From Data import to Normalization in Microarray Analysis using in R (Part I)
gene R
updated 5 months ago by 40k • written 7.3 years ago by ▴ 140
7
votes
0
replies
5.2k
views
Tutorial: Mothur Analyzing 16S Of Ngs High Through-Put Sequencing
next-gen
updated 7 months ago by 40k • written 11.3 years ago by ▴ 120
20
votes
6
replies
5.2k
views
Tutorial: Open Targets and programmatic access
open-targets disease API drug
updated 6 months ago by 40k • written 7.0 years ago by ★ 5.2k
0
votes
2
replies
5.2k
views
Tutorial: Install AMOS on Ubuntu 13.10
sequencing alignment software-error next-gen
updated 23 months ago by 40k • written 9.2 years ago by 9.7k
6
votes
11
replies
5.1k
views
6 follow
Tutorial: Add count numbers to headers in a fasta file
genome
updated 7 months ago by 40k • written 6.8 years ago by ▴ 50
23
votes
8
replies
5.1k
views
Tutorial: A Practical (And Opinionated) Guide To Analyzing Human Methylation 450K Data
450K methylation
updated 21 months ago by 40k • written 9.1 years ago by 24k
3
votes
2
replies
5.1k
views
Tutorial: Reorder Vcf Files
vcf
updated 7 months ago by 40k • written 10.4 years ago by ▴ 60
5
votes
3
replies
5.0k
views
Tutorial: bam2rpkm by bedtools
bam RNA-Seq bedtools rpkm
updated 6 months ago by • 0 • written 5.9 years ago by ▴ 130
12
votes
4
replies
5.0k
views
Tutorial: *FREE course* Bioinformatics for Biologists: An Introduction to Linux, Bash Scripting, and R
linux R
updated 7 months ago by 40k • written 2.6 years ago by ▴ 130
12
votes
1
reply
4.9k
views
Tutorial: RepSeq data processing and analysis
immunology tcr repseq sequencing repertoire
updated 11 months ago by 40k • written 8.1 years ago by 3.5k
13
votes
3
replies
4.9k
views
Tutorial: Video: Visualization of whole genome DNA methylation data in IGB
Bismark BS-Seq RNA-Seq IGB
updated 16 months ago by 40k • written 8.5 years ago by ▴ 860
6
votes
10
replies
4.8k
views
Tutorial: Differentially methylated regions: Easy & Fast Identification and ANnoTation
DMR dna-methylation
updated 6 months ago by 40k • written 5.6 years ago by ▴ 370
21
votes
2
replies
4.8k
views
Tutorial: Extracting genomic feature sequences from GTF/GFF files with AGAT
extract GTF GFF sequence
updated 12 months ago by ▴ 40 • written 2.4 years ago by 8.2k
11
votes
6
replies
4.7k
views
Tutorial: sharing some naive codes for microarray normalization in R with whom are too new in R alike me
R
updated 14 months ago by 40k • written 7.6 years ago by ★ 4.2k
3
votes
0
replies
4.6k
views
Tutorial: Comparing 454, Iontorrent And Miseq
454 miseq ion-torrent
updated 7 months ago by 40k • written 11.4 years ago by 98k
7
votes
0
replies
4.6k
views
Tutorial: How To Perform A Hierarchical Clustering Using Interactive Heatmaps From Gitools?
clustering
updated 6 months ago by 40k • written 9.5 years ago by ▴ 990
1
vote
0
replies
4.5k
views
Tutorial: Molecular docking, estimating free energies of binding, and a tutorial for how to use AutoDock's semi-empirical force field
free-energy docking scoring
updated 22 months ago by 40k • written 9.2 years ago by ▴ 140
15
votes
3
replies
4.4k
views
Tutorial: NCBI blast tutorial
ncbi blast
updated 5 months ago by 40k • written 7.4 years ago by 11k
50
votes
3
replies
4.4k
views
Tutorial: [[ Please read before posting a question ::: How To Ask A Good Question ]]
how-to
updated 6 months ago by 40k • written 4.7 years ago by 76k
15
votes
4
replies
4.3k
views
Tutorial: RNASeq tutorial for gene differential expression analysis
Transcriptomics bioconductor RNA-Seq R
updated 6 months ago by 40k • written 3.2 years ago by ▴ 330
2
votes
0
replies
4.3k
views
Tutorial: Calculation of TSS Scores for ATAC-seq Data
next-gen-sequencing
updated 6 months ago by 40k • written 4.2 years ago by ▴ 20
6
votes
3
replies
4.3k
views
Tutorial: Principles and Workflow of 16S/18S/ITS Amplicon Sequencing
alignment sequencing RNA-seq gene
updated 6 months ago by 40k • written 4.9 years ago by ▴ 40
10
votes
3
replies
4.3k
views
Tutorial: Video: Alternative Splicing and Primer Design
RNA-Seq IGB
updated 8 months ago by 40k • written 9.0 years ago by ▴ 860
4
votes
3
replies
4.3k
views
Tutorial: How to get full taxonomy classification using taxize and myTAI
taxonomy R
updated 6 months ago by 40k • written 5.5 years ago by ★ 3.9k
9
votes
0
replies
4.3k
views
Tutorial: Analysis of dbGaP data on the cloud
AWS dbGaP Cloud
updated 14 months ago by 40k • written 7.6 years ago by 19k
3
votes
4
replies
4.2k
views
Tutorial: gencore: a tool to reduce sequencing noises by generating consensus reads
consensus OpenGene sequencing-noise
updated 4 months ago by 40k • written 5.4 years ago by ★ 2.4k
28
votes
4
replies
4.0k
views
Tutorial: Modern Statistics for Modern Biology
statistics
updated 6 months ago by 40k • written 4.7 years ago by 26k
5
votes
0
replies
4.0k
views
Tutorial: Yes .. BBMap can do that! - Part III clumpify (mark (and dedupe) duplicates without alignment), mutate (create mutant genomes) and other miscellaneou…
bbmap
updated 6 months ago by 40k • written 2.7 years ago by 134k
5
votes
1
reply
4.0k
views
Tutorial: Mini-tutorial: How to fix too-long sequence names in SyMAP
alignment
updated 9 months ago by 40k • written 8.2 years ago by 7.9k
5
votes
3
replies
4.0k
views
Tutorial: Chip Seq Review Papers
chip-seq
updated 7 months ago by 40k • written 10.8 years ago by ▴ 80
9
votes
3
replies
4.0k
views
Tutorial: Ht Sequence Analysis With R And Bioconductor By The Bioinformatics Center At Uc Riverside
bioconductor
updated 7 months ago by 40k • written 11.1 years ago by 98k
9
votes
4
replies
4.0k
views
Tutorial: Unsupervised clustering on gene expression data
gene-expression clustering RNA-seq
6 weeks ago by Hamid Ghaedi 3.0k
9
votes
9
replies
3.9k
views
Tutorial: Determine % of reference genome covered by aligned SAM/BAM
reference-coverage ngs
updated 4 months ago by 40k • written 6.0 years ago by 86k
6
votes
2
replies
3.9k
views
Tutorial: GATK method for filtering vcf lines using GT values at all or multisample level.
genome vcf genotype variant-filtration
updated 4 months ago by 40k • written 6.3 years ago by ★ 1.6k
10
votes
0
replies
3.8k
views
Tutorial: Yes .. BBMap can do that! - Part I : bbmap (aligner), bbduk (scan/trim), repair (fix PE reads) and reformat (format conversions)
bbmap
updated 6 months ago by 40k • written 2.7 years ago by 134k
6
votes
2
replies
3.6k
views
Tutorial: How to extract fastq files from SRA data that contains both paired and unpaired reads
fastq-dump sra
updated 5 months ago by 40k • written 7.5 years ago by ▴ 840
3
votes
2
replies
3.6k
views
Tutorial: Galaxy Tutorial on ChIP-seq
galaxy ChIP-Seq
updated 4 months ago by 40k • written 6.5 years ago by ▴ 30
1
vote
0
replies
3.6k
views
Tutorial: embarrassingly easy parallel in Python, Perl and R
parallel
updated 13 months ago by 40k • written 7.9 years ago by ▴ 70
3
votes
1
reply
3.6k
views
Tutorial: Importance of Array Quality Control - arrayQualityMetrics (PART I)
gene R
updated 5 months ago by 40k • written 7.3 years ago by ▴ 140
20
votes
14
replies
3.6k
views
Tutorial: Video-tutorials: How to get started using EaSeq for interactive ChIP-seq data visualization and exploration (Windows)
ChIP-Seq visualization Windows EaSeq
updated 5 months ago by 40k • written 7.4 years ago by ▴ 460
10
votes
2
replies
3.5k
views
Tutorial: Graph visualization with igraph in R
Visualization igraph Graph R Network
updated 4 months ago by 40k • written 6.5 years ago by 26k
3
votes
0
replies
3.5k
views
Tutorial: Video Tutorial On Conducting Whole-Exome Sequencing Research
exome-sequencing
updated 6 months ago by 40k • written 10.3 years ago by 9.7k
6
votes
0
replies
3.5k
views
Tutorial: How to predict genes using a two-pass (iterative) MAKER2 workflow
Assembly
updated 6 months ago by 40k • written 9.3 years ago by 7.9k
9
votes
0
replies
3.5k
views
Tutorial: Video: Intro to All New Features in IGB 8.2
R paired-end IGB
updated 18 months ago by 40k • written 8.8 years ago by ▴ 860
0
votes
0
replies
3.5k
views
Tutorial: SFA (Stochastic Frontier Analysis) STATA 14
R
updated 4 months ago by 40k • written 5.6 years ago by ▴ 10
0
votes
0
replies
3.5k
views
Tutorial: Park Test for Heteroskedasticity In R Commander
R Park-Test
updated 4 months ago by 40k • written 5.7 years ago by ▴ 10
3
votes
4
replies
3.5k
views
Tutorial: Gene Set Enrichment Analysis on T-BioInfo
gene RNA-Seq
updated 4 months ago by 40k • written 4.9 years ago by ▴ 340
15
votes
2
replies
3.4k
views
Tutorial: Methylation Analysis Tutorial in R_part2
cancer methylation RNA-Seq R
updated 6 months ago by 40k • written 3.0 years ago by 3.0k
4
votes
2
replies
3.4k
views
Tutorial: Introduce OpenGene: an open source library for processing NGS data
NGS sequencing Julia OpenGene
updated 6 months ago by 40k • written 7.6 years ago by ★ 2.4k
379 results • Page 4 of 8
Recent Votes
Comment: Low Alignment rate
Answer: Filter transcription factors
Answer: Filter transcription factors
Answer: Filter transcription factors
Comment: Integrated Seurat object change name of the two conditions
Comment: Integrated Seurat object change name of the two conditions
Concatenating fastq.gz files across lanes
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Recent Replies
Comment: Should I Learn Docker to Run Command Line Bioinformatics Tool? by ATpoint 76k
Never tried, so idk. Why wouldn't it support it?
Comment: Should I Learn Docker to Run Command Line Bioinformatics Tool? by ATpoint 76k
I never tried conda images but since `mamba > conda` I guess mambaforge is better.
Comment: Filter human transcription factors by Chris ▴ 180
Thank you so much!
Comment: Filter human transcription factors by Chris ▴ 180
Yes, I do GO and GSEA to get pathway. I download the background gene at https://www.gsea-msigdb.org/gsea/msigdb/human/collections.jsp#C3 Th…
Answer: Visualize where kmers are on a reference genome by Alex Reynolds 35k
Make a bigBed file: https://www.biostars.org/p/9546293/ Then view it on the UCSC Genome Browser: http://genome.ucsc.edu/goldenPath/help/…
Comment: Integrated Seurat object change name of the two conditions by camillab. ▴ 130
great! thank you very much!
Answer: Filter transcription factors by jared.andrews07 ★ 15k
[This database](http://humantfs.ccbr.utoronto.ca/download.php) has been the best I've found.
Comment: Filter transcription factors by Ram 40k
What have you tried? Have you looked at GO annotations?
Comment: how to identify uniq genes between two gff files. by nikhil ▴ 10
yes @juke34 , I tried agat_sp_compare_two_annotations.pl for both gff files and got comparative output in table format. Thank you very muc…
Comment: Integrated Seurat object change name of the two conditions by Amitm ★ 2.2k
Yes, its similar structure. This snippet should add a new metadata column "sample.New" with what you want to do # Assuming a seurat obj. c…
Comment: Low Alignment rate by biofalconch ▴ 970
Yeap, you can sample your reads with `seqtk` like this: seqtk sample -s100 read2.fq 100 > Sample.fq Take a couple and run them throug…
Answer: obtaining circular RNAs' sequences from circBase by Barry Digby ★ 1.2k
You won't find them on circBase. circAtlas has the mature spliced sequence available. You can [search for circRNAs](https://ngdc.cncb.a…
Comment: Should I Learn Docker to Run Command Line Bioinformatics Tool? by Ram 40k
\#TIL mambaforge - better than continuum's conda images I'm guessing?
Comment: Should I Learn Docker to Run Command Line Bioinformatics Tool? by arriyaz.nstu ▴ 30
If the laptop doesn't support WSL2, then will the Docker (with linux) work?
Comment: Integrated Seurat object change name of the two conditions by camillab. ▴ 130
thanks but my metadata looks different from yours. Will it work even there are not the same "structure"? or…
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