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News: The Biostar Handbook. A bioinformatics e-book for beginners.

tutorial news training handbook written 21 months ago by Istvan Albert ♦♦ 77k • updated 1 hour ago by Ram ♦ 17k

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The Biostar Handbook: A Beginner's Guide to Bioinformatics

handbook written 14 months ago by nusrat.bot • 0 • updated 14 months ago by genomax ♦ 55k

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News: The Gene Ontology Handbook (open access)

news training handbook go tutorial written 21 months ago by Christophe Dessimoz • 470

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Recent Replies

A: Illumina bead chip data normalisation by Kevin Blighe ♦ 28k
You can download the already-normalised data with: library(Biobase) library(GEOquery) ...
A: NA12878 vs RM 8398 Reference DNA by bruceracey • 10
Oh wow, I thought I read that but apparently I glossed over the part where they wrote "DNA is cur...
C: how to find out which cellular pathways a gene belongs to? by cpad0112 • 8.9k
For pathways, KEGG and for functions in a cell, try GO:MF
A: clonal populations in cancer samples by Kevin Blighe ♦ 28k
It is not as easy as simply taking an allele frequency because numerous factors go into the deter...
C: how to find out which cellular pathways a gene belongs to? by gb • 310
Maybe kegg is an option. https://www.genome.jp/kegg/pathway.html
C: Different result from WGCNA tutorial I by Kevin Blighe ♦ 28k
Cool!
C: Edirect esearch exclude given accessions by erwan.scaon • 550
Ok, based on NZ_XX[0-9]* sequences IDs I have when downloading the non-filtered database, I came ...
C: Filtering in RNA-Seq to get Differentially Expressed lncRNA by conor93 • 0
Hi Kevin, I can definitely identify this problem in regards to multi-mapped reads, but what i'd...
C: HISAT2 alignment Error? by k.kathirvel93 • 100
Should I do something for this warning OR i can go further ?. Because after this, i am getting mo...
A: Interpreting Ldhat Outputs by nineday.lzu • 0
I am using LDhat package to estimate recombination/mutation rate with 10kbp windows along genome ...
C: Using RNA-seq reads from closely related species in BRAKER2 genome annotation pi by harish • 130
For QC? I had used FastQC+Trimmomatic. I found it sufficiently fast and good enough, given I pick...
C: HISAT2 alignment Error? by ATpoint ♦ 7.5k
`Cutadapt` has no default minimum read length. I never noticed that because I always use `-m 18`....

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