Bind-N-Seq
Data files
- run1_seq.fa.gz - raw sequence; Solexa sequencing, run 1
- run2_seq.fa.gz - raw sequence; Solexa sequencing, run 2
- barCode-condition_run1.txt - conditions - barCode correspondence; run 1
- barCode-condition_run2.txt - conditions - barCode correspondence; run 1
Perl Scripts
- htsAnalisis.pl - quality control analysis of raw sequence data
- motifMapper.pl - known motif search within sequence data
- seqMapper.pl - known sequences (k-mers) affinity (enrichment) calculation
Perl modules
- Az.pm - used by above Perl scripts
- Databrowser.pm - used by above Perl scripts
- ZFdnaBS.pm - used by above Perl scripts
MERMADE
- mermade-1.01.tar.gz - core MERMADE scripts
- background.txt - default background file for MERMADE
Please email us using the link on the right if you have any questions about this data.
Korflab in the news
Jan 28, 2013: A Haldane's Sieve Blog Post by Keith Bradnam that discusses the Assemblathon 2 pre-print
Nov 12, 2012: a feature on Danielle Lemay by the Calfifornia Dairy Research Foundation
Mar 23, 2011: A Nature news article about genome assembly, with an interview of Ian Korf.
Quick Links
Unix & Perl for Biologists
Our free 175-page primer that teaches the basics of Unix & Perl
Unix & Perl to the RESCUE!
Our book that greatly expands on our free primer.
Software GALAXY
Comprehensive online toolkit for sequence analysis and visualisation
UC Davis Genome Center
Where we work
UC Davis Bioinformatics Core
Part of the Genome Center
Contact Us
For questions or comments about the website, please e-mail:
korflab AT ucdavis DOT edu
Contact information for specific members of our lab can be found on their personal pages.