cnvCSEM – CNV-guided Multi-read Allocation for ChIP-seq

cnvCSEM

:: DESCRIPTION

cnvCSEM  (CNV: -guided C: hIP-S: eq by E: xpectation-M: aximization algorithm), is a flexible framework that incorporates CNV in multi-read allocation.

::DEVELOPER

Qi Zhang (qizhang at stat dot wisc dot edu)

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux /  Windows / MacOsX
  • C++ Compiler
  • Perl
  • Bowtie
:: DOWNLOAD

 cnvCSEM

:: MORE INFORMATION

Citation

CNV-guided Multi-read Allocation for ChIP-seq.
Zhang Q, Keleş S.
Bioinformatics. 2014 Jun 24. pii: btu402.

CSEM v2.4 – ChIP-Seq multi-read allocation using Expectation-Maximization

CSEM v2.4

:: DESCRIPTION

CSEM: The ChIP-Seq sibling to RSEM. Using an EM-inspired heuristic, CSEM allocates reads from ChIP-Seq data sets, allocating reads that map to multiple positions fractionally.

::DEVELOPER

Colin DeweyBo Li

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 RSEM

:: MORE INFORMATION