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9.3k
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Tutorial: Easy way to do GO enrichment in R
enrichr gene RNA-Seq R Tutorial
updated 12 days ago by 81k • written 4.5 years ago by ▴ 610
11
votes
6
replies
1.4k
views
Tutorial: TCGA transcriptome data to R (DESeq2)
TCGA GDC DESeq2
20 days ago by Barry Digby ▴ 970
122
votes
119
replies
22k
views
22 follow
Tutorial: Survival analysis with gene expression
survival analysis cox geo gene expression Tutorial
10 days ago by Kevin Blighe 81k
85
votes
95
replies
27k
views
23 follow
Tutorial: Produce PCA bi-plot for 1000 Genomes Phase III - Version 2
Tutorial 1000 genomes PCA PLINK
updated 11 days ago by • 0 • written 3.7 years ago by 81k
69
votes
19
replies
8.7k
views
15 follow
Tutorial: Gene Set Enrichment Analysis
enrichment microarray Tutorial GSEA RNA-Seq
25 days ago by Hamid Ghaedi ★ 2.5k
98
votes
16
replies
27k
views
18 follow
Tutorial: Heatmaps in R
Tutorial R heatmap
16 days ago by Jean-Karim Heriche 25k
147
votes
35
replies
55k
views
33 follow
Tutorial: Tools For Metagenomic Data Analysis
metagenomics Tutorial next-gen
updated 12 days ago by • 0 • written 9.5 years ago by ★ 1.6k
269
votes
39
replies
148k
views
29 follow
Tutorial: How to download raw sequence data from GEO/SRA
fastq SRA download GEO bam
updated 22 days ago by 36k • written 7.7 years ago by 19k
142
votes
34
replies
49k
views
17 follow
Tutorial: Working with MAF files (Mutation Annotation Format) from the TCGA (The Cancer Genome Atlas)
mutation maf tcga cancer music Tutorial
updated 9 days ago by 36k • written 9.1 years ago by 5.8k
141
votes
21
replies
28k
views
12 follow
Tutorial: A few words for R beginners
Swirl R
updated 16 days ago by 36k • written 7.4 years ago by ★ 1.6k
30
votes
8
replies
9.7k
views
7 follow
Tutorial: How To Create A Bioinformatics Pipeline Using Spotify !
bioinformatics pipeline python tutorial Tutorial
updated 11 days ago by 36k • written 8.1 years ago by ▴ 800
81
votes
8
replies
7.4k
views
6 follow
Tutorial: Current Topics in Genome Analysis 2014 (collection of educational lectures)
genomics workshop Tutorial lectures training
updated 11 days ago by 36k • written 7.9 years ago by 19k
12 results • Page 1 of 1
Recent Votes
Where did EMBOSS go?
Lasso regression and cross-validation on RNA seq dataset
Answer: Lasso regression and cross-validation on RNA seq dataset
A: Is it possible to run haplotypecaller in gnu parallel ?
Is it possible to run haplotypecaller in gnu parallel ?
A: Identifying De Novo Mutations from vcf files
Answer: Lasso regression and cross-validation on RNA seq dataset
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Recent Replies
Comment: R: problem with running time-series analysis software: Mfuzz by Kevin Blighe 81k
Cross-posted: https://support.bioconductor.org/p/9144396/
Answer: Lasso regression and cross-validation on RNA seq dataset by Mensur Dlakic ★ 18k
It is not clear whether you have 192 datasets or 192 features in some undefined number of datasets, but either way cross validation is a sm…
Comment: SARS-CoV-2 lineages complete reference genomes by GenoMax 115k
I don't know if the following two resources are going to provide `reference` genomes. You may have to go to GSAID for that.
Answer: SARS-CoV-2 lineages complete reference genomes by GenoMax 115k
From EBI: https://www.covid19dataportal.org/sequences?crossReferencesOption=all ![EBI][1] [1]: /media/images/04dd9b11-77a8-4327-8…
Answer: Software to draw protein domains of proteins by cmdcolin ★ 2.1k
tools mentioned by other users are great, a couple more tools here https://cmdcolin.github.io/awesome-genome-visualization/?latest=true&tag…
Answer: SARS-CoV-2 lineages complete reference genomes by GenoMax 115k
At [**NCBI SARS-CoV-2**][1] resource page. Be sure to switch to `Nucleotide` tab and then click on pango lineage search. ![Pango][2] …
Answer: comparisons between 2 ChIP-seq datasets by jared.andrews07 ★ 13k
Honestly, I'd just eyeball the tracks in IGV. It's usually pretty apparent. If you want more objective measures, you could look at total…
Comment: data correaltion by Jeremy ▴ 130
FYI the cor.test() function will display a p-value in addition to the correlation coefficient.
Comment: Inflation in Imputed data by desicasares@gmail.com ▴ 10
Thank you for your answer...the populations I am using are Spanish, North European and Italian individuals. In the case of the Italians t…
Comment: MAF in R by malgorzata.sobczak07 • 0
You're the best! Thanks! :)
Comment: Help with kallisto-bustools: how to interpret the inspect.json output file by dsull ★ 3.0k
Correct, which is why you should load your output into R or python and filter your cells (i.e. do the "knee plot"). See the kallisto | bust…
Answer: MAF in R by Ram 36k
You can use `HardyWeinberg::maf` to calculate MAF from a vector of frequencies. You can create this vector of HOM/HET/HOM-ALT frequencies u…
Comment: MAF in R by malgorzata.sobczak07 • 0
Yeah, sorry :)
Comment: MAF in R by Ram 36k
Your code won't work. You'll need to quote the allele strings
Comment: The minor allele frequency by Negatyvna • 0
Yes, I would like to do the second option
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