How to get H3K4me1 FASTA file using UCSC genome browser?
0
0
Entering edit mode
7.9 years ago

I have H3K4me1 bed file that I would like to obtain its sequence using UCSC genome browser. There are many options provided. I'm using the following options: clade: mammal, genome: human, assembly: hg18, group: ?, track: ?

May I know what should I select for the group and track options? thanks.
ChIP-Seq sequence UCSC histone • 1.5k views
ADD COMMENT •
1
Entering edit mode

It's probably easier to:

  1. Download the hg18 fasta file
  2. Install bedtools
  3. Use getfasta from bedtools with 1. and your BED file.

There are then no options to worry about clicking or limitations on the number of regions.

ADD REPLY •

Login before adding your answer.

Similar Posts
Loading Similar Posts
Traffic: 3152 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

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

Powered by the version 2.3.6