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69
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44k
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Tutorial: How To Ask Good Questions On Technical And Scientific Forums
tutorial Tutorial
written 7.8 years ago by 11k
5
votes
0
replies
154
views
Tutorial: Pipes in R: An introduction and some advanced tips and tricks.
R
12 days ago by rpolicastro 5.1k
224
votes
175
replies
67k
views
72 follow
Tutorial: Survival analysis of TCGA patients integrating gene expression (RNASeq) data
RNA-Seq TCGA Survival Tutorial
updated 16 days ago by 32k • written 5.7 years ago by ★ 4.3k
9
votes
0
replies
225
views
Tutorial: Greatly speed up conda by using mamba
software
17 days ago by rpolicastro 5.1k
6
votes
0
replies
122
views
Tutorial: data.frames in R: How vectorization can save you time and heartache
R
12 days ago by rpolicastro 5.1k
7
votes
2
replies
168
views
Tutorial: Installing an updated R version (>=4.0) using conda
R software error Tutorial
updated 21 days ago by 12k • written 21 days ago by ▴ 480
7
votes
1
reply
134
views
Tutorial: Split a 'linearised' (flattened) FASTA sequence into multi-line using AWK
awk fasta Tutorial
23 days ago by Kevin Blighe 72k
10
votes
6
replies
874
views
Tutorial: Finding the significance of the overlap between 2 or more gene sets using simulation in R.
R tidyverse gene Tutorial
updated 23 days ago by ▴ 730 • written 7 months ago by 5.1k
12
votes
2
replies
215
views
Tutorial: Factors in R - How do they work, and how did I break my data?
R Tutorial
12 days ago by rpolicastro 5.1k
143
votes
34
replies
49k
views
31 follow
Tutorial: Tools For Metagenomic Data Analysis
metagenomics next-gen tutorial Tutorial
updated 25 days ago by ▴ 90 • written 8.4 years ago by ★ 1.6k
4
votes
2
replies
903
views
Tutorial: *FREE course* Bioinformatics for Biologists: An Introduction to Linux, Bash Scripting, and R
R linux bioinformatics Tutorial
updated 27 days ago by • 0 • written 8 weeks ago by ▴ 40
10
votes
2
replies
758
views
Tutorial: Methylation Analysis Tutorial in R_part2
methylation RNA-Seq R cancer Tutorial
4 weeks ago by Hamid Ghaedi ★ 1.3k
4
votes
0
replies
550
views
Tutorial: Building mosdepth on macOS
mosdepth nim Tutorial
7 days ago by ATpoint 47k
13
votes
0
replies
2.8k
views
Tutorial: Methylation Analysis Tutorial in R_part1
methylation cancer R Tutorial
5 weeks ago by Hamid Ghaedi ★ 1.3k
67
votes
32
replies
9.6k
views
17 follow
Tutorial: Enrichment Analysis, Clustering and Scoring with pathfindR
R pathway enrichment active subnetwork Tutorial
updated 6 weeks ago by • 0 • written 2.8 years ago by ★ 1.1k
29
votes
11
replies
3.7k
views
7 follow
Tutorial: Generating consensus sequence from bam file
bam fasta consensus Tutorial
updated 6 weeks ago by • 0 • written 2.1 years ago by 14k
10
votes
7
replies
5.4k
views
Tutorial: Integrating VDJ sequencing data with Seurat
Seurat clonotyping VDJ sc-RNAseq Tutorial
updated 7 weeks ago by 6.9k • written 22 months ago by ▴ 260
228
votes
32
replies
67k
views
22 follow
Tutorial: Cheat Sheet For One-Based Vs Zero-Based Coordinate Systems
coordinates tutorial Tutorial
updated 7 weeks ago by ▴ 10 • written 7.5 years ago by 19k
39
votes
8
replies
2.4k
views
7 follow
Tutorial: Gene Set Enrichment Analysis
microarray RNA-Seq Tutorial enrichment GSEA
1 day ago by Hamid Ghaedi ★ 1.3k
3
votes
0
replies
430
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
10 weeks ago by GenoMax 99k
6
votes
0
replies
1.1k
views
Tutorial: Yes .. BBMap can do that! - Part II randomreads (read simulation), demuxbyname/filterbyname, bbsplit (read binning/decontamination) and pileup (cover…
bbmap Tutorial
10 weeks ago by GenoMax 99k
5
votes
0
replies
619
views
Tutorial: Yes .. BBMap can do that! - Part I : bbmap (aligner), bbduk (scan/trim), repair (fix PE reads) and reformat (format conversions)
bbmap Tutorial
10 weeks ago by GenoMax 99k
7
votes
1
reply
423
views
Tutorial: Guidelines for the computational analysis of single-cell RNA sequencing data
scRNA-seq Tutorial
updated 3 months ago by 47k • written 3 months ago by ★ 10k
34
votes
9
replies
8.8k
views
10 follow
Tutorial: Resources for flow cytometry bioinformatics
tutorial flow cytometry Tutorial single cell
written 7.0 years ago by ★ 1.9k
2
votes
0
replies
628
views
Tutorial: Best Python Course
python Tutorial ad
updated 3 months ago by 15k • written 3 months ago by ▴ 20
10
votes
3
replies
3.5k
views
Tutorial: installing samtools with conda - overcoming two common errors
samtools conda Tutorial
updated 3 months ago by ▴ 220 • written 7 months ago by ▴ 70
0
votes
1
reply
1.6k
views
Tutorial: Getting the lineage of an organism from NCBI taxonomy data
taxonomy python biosql Tutorial
updated 4 months ago by • 0 • written 2.7 years ago by ▴ 200
70
votes
13
replies
11k
views
12 follow
Tutorial: Exploring cancer mutation data portals
Cancer Data Portal Mutation TCGA ICGC Tutorial
4 months ago by Malachi Griffith 18k
4
votes
10
replies
2.9k
views
Tutorial: Differentially methylated regions: Easy & Fast Identification and ANnoTation
dna methylation Tutorial DMR
4 months ago by dec986 ▴ 260
41
votes
6
replies
9.6k
views
Tutorial: Annotating TCGA MAFs with the latest Ensembl/Gencode transcripts
maf vcf ensembl tcga somatic Tutorial
4 months ago by Cyriac Kandoth 5.5k
5
votes
2
replies
2.7k
views
Tutorial: bam2rpkm by bedtools
RNA-Seq bam rpkm bedtools Tutorial
updated 4 months ago by 47k • written 3.5 years ago by ▴ 110
16
votes
11
replies
4.6k
views
Tutorial: How to Use Biostars, Part II: Post types, Deleting, (Un)Subscribing, Linking and Bookmarking
meta how-to documentation Tutorial
4 months ago by Ram 32k
40
votes
33
replies
4.8k
views
8 follow
Tutorial: How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
meta how-to documentation Tutorial
4 months ago by Ram 32k
80
votes
6
replies
13k
views
6 follow
Tutorial: Creating workflows with snakemake and conda
snakemake conda workflow Tutorial
updated 5 months ago by ▴ 30 • written 2.6 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 5 months ago by ★ 1.8k • written 4.8 years ago by ▴ 140
17
votes
3
replies
3.1k
views
Tutorial: Using EnrichedHeatmap for visualization of NGS experiments
enrichedheatmap chip-seq atac-seq heatmap Tutorial
6 days ago by ATpoint 47k
66
votes
39
replies
21k
views
20 follow
Tutorial: Extract Total Non-Overlapping Exon Length Per Gene With Bioconductor
rna-seq bioconductor fpkm Forum Tutorial
updated 5 months ago by 32k • written 7.5 years ago by ★ 7.3k
7
votes
4
replies
2.1k
views
Tutorial: RNASeq tutorial for gene differential expression analysis
RNA-Seq Transcriptomics Tutorial R bioconductor
5 months ago by Thind amarinder ▴ 130
24
votes
0
replies
1.4k
views
Tutorial: Resources / databases for clinical interpretation of cancer variants
variant interpretation annotation clinical cancer Tutorial
6 months ago by Malachi Griffith 18k
10
votes
1
reply
1.3k
views
Tutorial: introduce a tool for fast identification of SARS-CoV-2 and other microbes from sequencing data
COVID-19 fastv Tutorial SARS-CoV-2
6 months ago by chen ★ 2.1k
54
votes
47
replies
32k
views
20 follow
Tutorial: Creating Interactive Volcano Plots with R and Plot.ly
R plotly volcano plot Tutorial
updated 6 months ago by • 0 • written 4.5 years ago by ★ 2.9k
9
votes
5
replies
931
views
Tutorial: STARsolo config for 10x Chromium v1, v2, v3
STAR STARsolo 10x Chromium Tutorial
6 months ago by Kevin Blighe 72k
13
votes
16
replies
2.6k
views
7 follow
Tutorial: Create de novo repeat library
annotation repeat de-novo Tutorial
6 months ago by Juke34 ★ 5.3k
0
votes
0
replies
266
views
Tutorial: BrainArray CDF, annotation, etc
brainarray cdf db Tutorial
6 months ago by Kevin Blighe 72k
30
votes
0
replies
2.4k
views
Tutorial: Basic normalization, batch correction and visualization of RNA-seq data
RNA-Seq batch correction edgeR ma-plot Tutorial
7 months ago by ATpoint 47k
8
votes
0
replies
567
views
Tutorial: Long versus wide data for plotting genomics data in R.
R tidyverse ggplot2 Tutorial data.table
12 days ago by rpolicastro 5.1k
67
votes
68
replies
10k
views
16 follow
Tutorial: Clustering of DAVID gene enrichment results from gene expression studies
enrichment Tutorial david
updated 10 days ago by ▴ 900 • written 3.1 years ago by 72k
104
votes
66
replies
24k
views
20 follow
Tutorial: Fast download of FASTQ files from the European Nucleotide Archive (ENA)
ENA Fastq fastq-dump aspera Tutorial
updated 7 months ago by ▴ 30 • written 2.8 years ago by 47k
83
votes
15
replies
22k
views
16 follow
Tutorial: Heatmaps in R
heatmap R Tutorial
7 months ago by Jean-Karim Heriche 24k
1
vote
1
reply
391
views
Tutorial: Downloading GnuWin and using to convert txt to bed file for windows users
bed txt bed2txt sequencing Tutorial
8 months ago by opheevallee • 0
328 results • Page 1 of 7
Recent Votes
Answer: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens
Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens
Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens
Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens
Answer: Tool to find chromosome specific repeats
Answer: What Is The Total Size Of Hgdownload.Cse.Ucsc.Edu/Gbdb/Mm9
Comment: correct way of analyzing cell proportions in singlecell data
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Recent Replies
Answer: Expression of gene of interest across conditions in single-cell data by jared.andrews07 9.1k
Take a look at [dittoSeq](http://www.bioconductor.org/packages/release/bioc/vignettes/dittoSeq/inst/doc/dittoSeq.html) for viz options - it…
Comment: Extracting only tumor samples from Single cell RNASeq by jared.andrews07 9.1k
You need pre-defined variants for Vartrix. Typically it's used in conjuction with WGS/WES from bulk tissue to look for clonal variants in d…
Comment: Cell composition in each condition of single cell data by paria.alipour ▴ 20
Oh, I'm sorry. I already posted it in here the https://www.biostars.org/p/457243/#9464486. I've added the images
Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens by Quanyou • 0
This seems OK when one gene generates only one transcirpt. But when one gene has multiple transcripts, these code would return a table wher…
Comment: How to convert Transcripts ID of rhesus monkey to Transcripts ID of homo sapiens by Quanyou • 0
This seems feasible. But I want to convert tens of thousands of transcript IDs. Could you tell me how can I make it through sequene search?
Answer: bbmap, mapq and uniquelly mapped reads filtering by GenoMax 99k
Many threads exist that show how to extract uniquely mapped reads. Here are a couple of examples:<br> https://www.biostars.org/p/276216/#27…
Comment: Cell composition in each condition of single cell data by rpolicastro 5.1k
The images seem to be missing from your post
Comment: Limma experiment design and making contrasts by kra277 • 0
Thank you very much for this. Much appreciated.
Comment: Limma experiment design and making contrasts by Kevin Blighe 72k
Hi, these follow the same principles as formulae used in regression modelling, so, you may want to focus on that (when searching). What lim…
Comment: Limma experiment design and making contrasts by kra277 • 0
That is very insightful. Thank you very much for the answer. Also, if I may ask, could you please point me to the articles for understandin…
Comment: Keep values from VCF file into Ensembl VEP annotation by brunobsouzaa ▴ 510
Thanks Man... I've wroten a simple awk command for this task! Everything is working fine.
Comment: Raw read processing using trimmomatic by boczniak767 ▴ 740
Do you have exact command used by the author? I guess that not all details was presented in the paper. You can always ask the corresponding…
Comment: should stop codon be counted as part of CDS by sullis02 • 0
Your github page appears to live here now https://github.com/NBISweden/GAAS/blob/master/annotation/knowledge/gxf.md
Comment: How do I compare degree and betweenness centrality for different PPI networks? by Istvan Albert 87k
I am not all that knowledgeable of Cytoscapes features and scripting capabilities, but if it does not support that operation you can expo…
Comment: Creating reference genome for mapping and then selecting by Istvan Albert 87k
you would get the counts as you would get them in any other case, how do you know something maps to chromosome 1 of human genome? Because i…
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