genomic intervals Posts

Latest

Open

RNA-Seq

ChIP-Seq

SNP

Assembly

Tutorials

Tools

Jobs

Forum

Planet

All »

Home

Welcome to Biostar! about • faq • rss

Community

Log In

Sign Up

Add New Post

Showing selected topics • reset

or Classic search

votes

answers

2.2k

views

answers

How to identify consecutive (adjacent) genomic intervals

latest bed genomic intervals written 4.9 years ago by A. Domingues • 2.4k • updated 2.3 years ago by _r_am ♦ 32k

votes

answers

1.0k

views

answers

How to compute P_value for Permutation Test?

permutation genomic intervals p value written 2.7 years ago by annamariabugaj • 0

Recent Votes

Recent Locations • All »

Bloomington, IN, 2 minutes ago

Recent Awards • All »

Scholar to rpolicastro ♦ 3.2k
Popular Question to I0110 • 120
Teacher to John Marshall ♦ 2.2k
Teacher to Mensur Dlakic • 8.1k
Scholar to Pierre Lindenbaum ♦ 133k
Teacher to ATpoint ♦ 44k

Recent Replies

C: Cutadapt for loop issue by _r_am ♦ 32k
It would be easier and would make more sense if you provided your code and explained the problem ...
C: Duplicated genes in overrepresentation analysis (ORA) by nickhir • 20
Aright, thank you very much! I plan on comparing biopsy A vs biopsy A+biopsy B to figure out if s...
C: Blast + Alignement Shell Script by brian.fristensky • 130
You are right, sometimes you want a shell script for processing large numbers or queries. What I ...
C: Duplicated genes in overrepresentation analysis (ORA) by kelen • 150
This is just coming from what I know about ORA as I thought this is what you were asking, if you ...
C: Filter for nonoverlapping genomic hits and keep the longest one by lessismore • 930
Congrats <3 That's a great solution!
C: Structural variants detection from assembled genome from Nanopore sequence data by trausch • 1.5k
That's a matter of the assembly quality. If you have low coverage data you may also want to try m...
C: Gene Set Enrichment Analysis by ATpoint ♦ 44k
I use `fgsea` not the Broad version, but as said (and in my understanding) it takes ranked gene l...
C: Structural variants detection from assembled genome from Nanopore sequence data by rthapa • 40
Thanks a lot. I will try minigraph. Just a question, is it preferred to use raw fastq reads for c...
A: Structural variants detection from assembled genome from Nanopore sequence data by trausch • 1.5k
There are multiple options, [mingraph][1] for instance has [SV calling][2] or [pav][3]. [1]: h...
C: Gene Set Enrichment Analysis by I0110 • 120
Above mentioned "the original methodology was designed to work on microarray but later modificati...
C: Gene Set Enrichment Analysis by ATpoint ♦ 44k
None, GSEA takes ranked gene lists, no matter where they come from.
A: Gene Set Enrichment Analysis by I0110 • 120
Thanks for the very nice tutorial. I was wondering what modification needs to be done for a GSEA ...

Content

Help

About
FAQ

Access

RSS
Stats
API

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Traffic: 2456 users visited in the last hour