MOTIFSIM

Download executable files for Windows and Linux

Version 2.2

motifsim-v2-2-linux64, tested on Linux 64 bits system.
motifsim-v2-2-wins64, tested on Windows 64 bits system.

Version 2.1

motifsim-v2-1-linux32, tested on Linux 32 bits system.
motifsim-v2-1-linux64, tested on Linux 64 bits system.
motifsim-v2-1-wins32, tested on Windows 32 bits system.
motifsim-v2-1-wins64, tested on Windows 64 bits system.

Version 2.0

motifsim-v2-0-linux32, tested on Linux 32 bits system.
motifsim-v2-0-linux64, tested on Linux 64 bits system.
motifsim-v2-0-wins32, tested on Windows 32 bits system.
motifsim-v2-0-wins64, tested on Windows 64 bits system.

Version 1.0

motifsim-v1-0-linux32, tested on Linux 32 bits system.
motifsim-v1-0-linux64, tested on Linux 64 bits system.
motifsim-v1-0-wins32, tested on Windows 32 bits system.
motifsim-v1-0-wins64, tested on Windows 64 bits system.

User manual can be found below

Source code can be found below

Download test datasets

Test datasets came from original publication: N.T.L. Tran and C.-H. Huang, A survey of motif finding Web tools for detecting binding site motifs in ChIP-Seq data. Biology Direct, 9(4):1-22, 2014.

Motif Dataset	Motif Input Format	Number of Motifs
DREME_DM230	MEME's output	1
MEME_DM230	MEME's output	20
PScanChIP_DM230	Jaspar	14
RSAT_peak-motifs_DM230	TRANSFAC-like	10
W-ChIPMotifs_DM230	PSSM	11
MEME_DM05	MEME's output	46
MEME-ChIP_DM05	MEME's output	4
PScanChIP_DM05	Jaspar	16
RSAT_peak-motifs_DM05	TRANSFAC-like	17
W-ChIPMotifs_DM05	PSSM	11
DREME_DM721	MEME's output	16
MEME-ChIP_DM721	MEME's output	11
PScanChIP_DM721	Jaspar	37
RSAT_peak-motifs_DM721	TRANSFAC-like	40

Download sample test results

Datasets for Comparison	Results (Version 2.2)	Results (Version 2.1)	Results (Version 2.0)	Results (Version 1.0)
W-ChIPMotifs_DM230.txt RSAT_peak-motifs_DM230.txt	Input Motifs in Text Results in HTML Results in PDF Results in Text Results Without Motif's Details in Text Results for Database Matching in HTML Results for Database Matching in PDF Results for Database Matching in Text Results for Database Matching Without Motif Details in Text Global Matching Results in HTML Global Matching Results in PDF Global Matching Results in Text Global Matching Results Match with Database in HTML Global Matching Results Match with Database in PDF Global Matching Results Match with Database in Text Combined Motifs for Global Matching in Text Combined Motifs for Global and Local Matching in Text Combined Motifs for Best Matches in Text Motif Tree in HTML Motif Tree in PDF Motif Tree for Global Matching in HTML Motif Tree for Global Matching in PDF Motif Tree in PNG Image Motif Tree for Global Matching in PNG Image	Input Motifs in Text Results in HTML Results in PDF Results in Text Results Without Motif's Details in Text Results for Database Matching in HTML Results for Database Matching in PDF Results for Database Matching in Text Results for Database Matching Without Motif Details in Text Global Matching Results in HTML Global Matching Results in PDF Global Matching Results in Text Global Matching Results Match with Database in HTML Global Matching Results Match with Database in PDF Global Matching Results Match with Database in Text Combined Motifs for Global Matching in Text Combined Motifs for Global and Local Matching in Text Combined Motifs for Best Matches in Text Phylogenetic Tree in HTML Phylogenetic Tree in PDF Phylogenetic Tree for Global Matching in HTML Phylogenetic Tree for Global Matching in PDF Phylogenetic Tree in PNG Image Phylogenetic Tree for Global Matching in PNG Image	Input Motifs Results Results Without Motif's Details Global Matching Results	Results Results Without Motif's Details
PScanChIP_DM05.txt RSAT_peak-motifs_DM05.txt	Input Motifs in Text Results in HTML Results in PDF Results in Text Results Without Motif's Details in Text Results for Database Matching in HTML Results for Database Matching in PDF Results for Database Matching in Text Results for Database Matching Without Motif Details in Text Global Matching Results in HTML Global Matching Results in PDF Global Matching Results in Text Global Matching Results Match with Database in HTML Global Matching Results Match with Database in PDF Global Matching Results Match with Database in Text Combined Motifs for Global Matching in Text Combined Motifs for Global and Local Matching in Text Combined Motifs for Best Matches in Text Motif Tree in HTML Motif Tree in PDF Motif Tree for Global Matching in HTML Motif Tree for Global Matching in PDF Motif Tree in PNG Image Motif Tree for Global Matching in PNG Image	Input Motifs in Text Results in HTML Results in PDF Results in Text Results Without Motif's Details in Text Results for Database Matching in HTML Results for Database Matching in PDF Results for Database Matching in Text Results for Database Matching Without Motif Details in Text Global Matching Results in HTML Global Matching Results in PDF Global Matching Results in Text Global Matching Results Match with Database in HTML Global Matching Results Match with Database in PDF Global Matching Results Match with Database in Text Combined Motifs for Global Matching in Text Combined Motifs for Global and Local Matching in Text Combined Motifs for Best Matches in Text Phylogenetic Tree in HTML Phylogenetic Tree in PDF Phylogenetic Tree for Global Matching in HTML Phylogenetic Tree for Global Matching in PDF Phylogenetic Tree in PNG Image Phylogenetic Tree for Global Matching in PNG Image	Input Motifs Results Results Without Motif's Details Global Matching Results	Results Results Without Motif's Details
MEME-ChIP_DM721.txt PScanChIP_DM721.txt	Input Motifs in Text Results in HTML Results in PDF Results in Text Results Without Motif's Details in Text Results for Database Matching in HTML Results for Database Matching in PDF Results for Database Matching in Text Results for Database Matching Without Motif Details in Text Global Matching Results in HTML Global Matching Results in PDF Global Matching Results in Text Global Matching Results Match with Database in HTML Global Matching Results Match with Database in PDF Global Matching Results Match with Database in Text Combined Motifs for Global Matching in Text Combined Motifs for Global and Local Matching in Text Combined Motifs for Best Matches in Text Motif Tree in HTML Motif Tree in PDF Motif Tree for Global Matching in HTML Motif Tree for Global Matching in PDF Motif Tree in PNG Image Motif Tree for Global Matching in PNG Image	Input Motifs in Text Results in HTML Results in PDF Results in Text Results Without Motif's Details in Text Results for Database Matching in HTML Results for Database Matching in PDF Results for Database Matching in Text Results for Database Matching Without Motif Details in Text Global Matching Results in HTML Global Matching Results in PDF Global Matching Results in Text Global Matching Results Match with Database in HTML Global Matching Results Match with Database in PDF Global Matching Results Match with Database in Text Combined Motifs for Global Matching in Text Combined Motifs for Global and Local Matching in Text Combined Motifs for Best Matches in Text Phylogenetic Tree in HTML Phylogenetic Tree in PDF Phylogenetic Tree for Global Matching in HTML Phylogenetic Tree for Global Matching in PDF Phylogenetic Tree in PNG Image Phylogenetic Tree for Global Matching in PNG Image	Input Motifs Results Results Without Motif's Details Global Matching Results	Results Results Without Motif's Details
DREME_DM230.txt MEME_DM230.txt PScanChIP_DM230.txt RSAT_peak-motifs_DM230.txt W-ChIPMotifs_DM230.txt	Input Motifs in Text Results in HTML Results in PDF Results in Text Results Without Motif's Details in Text Results for Database Matching in HTML Results for Database Matching in PDF Results for Database Matching in Text Results for Database Matching Without Motif Details in Text Global Matching Results in HTML Global Matching Results in PDF Global Matching Results in Text Global Matching Results Match with Database in HTML Global Matching Results Match with Database in PDF Global Matching Results Match with Database in Text Combined Motifs for Global Matching in Text Combined Motifs for Global and Local Matching in Text Combined Motifs for Best Matches in Text Motif Tree in HTML Motif Tree in PDF Motif Tree for Global Matching in HTML Motif Tree for Global Matching in PDF Motif Tree in PNG Image Motif Tree for Global Matching in PNG Image	Input Motifs in Text Results in HTML Results in PDF Results in Text Results Without Motif's Details in Text Results for Database Matching in HTML Results for Database Matching in PDF Results for Database Matching in Text Results for Database Matching Without Motif Details in Text Global Matching Results in HTML Global Matching Results in PDF Global Matching Results in Text Global Matching Results Match with Database in HTML Global Matching Results Match with Database in PDF Global Matching Results Match with Database in Text Combined Motifs for Global Matching in Text Combined Motifs for Global and Local Matching in Text Combined Motifs for Best Matches in Text Phylogenetic Tree in HTML Phylogenetic Tree in PDF Phylogenetic Tree for Global Matching in HTML Phylogenetic Tree for Global Matching in PDF Phylogenetic Tree in PNG Image Phylogenetic Tree for Global Matching in PNG Image	Input Motifs Results Results Without Motif's Details Global Matching Results	Results Results Without Motif's Details
MEME_DM05.txt MEME-ChIP_DM05.txt PScanChIP_DM05.txt RSAT_peak-motifs_DM05.txt W-ChIPMotifs_DM05.txt	Input Motifs in Text Results in HTML Results in PDF Results in Text Results Without Motif's Details in Text Results for Database Matching in HTML Results for Database Matching in PDF Results for Database Matching in Text Results for Database Matching Without Motif Details in Text Global Matching Results in HTML Global Matching Results in PDF Global Matching Results in Text Global Matching Results Match with Database in HTML Global Matching Results Match with Database in PDF Global Matching Results Match with Database in Text Combined Motifs for Global Matching in Text Combined Motifs for Global and Local Matching in Text Combined Motifs for Best Matches in Text Motif Tree in HTML Motif Tree in PDF Motif Tree for Global Matching in HTML Motif Tree for Global Matching in PDF Motif Tree in PNG Image Motif Tree for Global Matching in PNG Image	Input Motifs in Text Results in HTML Results in PDF Results in Text Results Without Motif's Details in Text Results for Database Matching in HTML Results for Database Matching in PDF Results for Database Matching in Text Results for Database Matching Without Motif Details in Text Global Matching Results in HTML Global Matching Results in PDF Global Matching Results in Text Global Matching Results Match with Database in HTML Global Matching Results Match with Database in PDF Global Matching Results Match with Database in Text Combined Motifs for Global Matching in Text Combined Motifs for Global and Local Matching in Text Combined Motifs for Best Matches in Text Phylogenetic Tree in HTML Phylogenetic Tree in PDF Phylogenetic Tree for Global Matching in HTML Phylogenetic Tree for Global Matching in PDF Phylogenetic Tree in PNG Image Phylogenetic Tree for Global Matching in PNG Image	Input Motifs Results Results Without Motif's Details Global Matching Results	Results Results Without Motif's Details
DREME_DM721.txt MEME-ChIP_DM721.txt PScanChIP_DM721.txt RSAT_peak-motifs_DM721.txt	Input Motifs in Text Results in HTML Results in PDF Results in Text Results Without Motif's Details in Text Results for Database Matching in HTML Results for Database Matching in PDF Results for Database Matching in Text Results for Database Matching Without Motif Details in Text Global Matching Results in HTML Global Matching Results in PDF Global Matching Results in Text Global Matching Results Match with Database in HTML Global Matching Results Match with Database in PDF Global Matching Results Match with Database in Text Combined Motifs for Global Matching in Text Combined Motifs for Global and Local Matching in Text Combined Motifs for Best Matches in Text Motif Tree in HTML Motif Tree in PDF Motif Tree for Global Matching in HTML Motif Tree for Global Matching in PDF Motif Tree in PNG Image Motif Tree for Global Matching in PNG Image	Input Motifs in Text Results in HTML Results in PDF Results in Text Results Without Motif's Details in Text Results for Database Matching in HTML Results for Database Matching in PDF Results for Database Matching in Text Results for Database Matching Without Motif Details in Text Global Matching Results in HTML Global Matching Results in PDF Global Matching Results in Text Global Matching Results Match with Database in HTML Global Matching Results Match with Database in PDF Global Matching Results Match with Database in Text Combined Motifs for Global Matching in Text Combined Motifs for Global and Local Matching in Text Combined Motifs for Best Matches in Text Phylogenetic Tree in HTML Phylogenetic Tree in PDF Phylogenetic Tree for Global Matching in HTML Phylogenetic Tree for Global Matching in PDF Phylogenetic Tree in PNG Image Phylogenetic Tree for Global Matching in PNG Image	Input Motifs Results Results Without Motif's Details Global Matching Results	Results Results Without Motif's Details

Last updated on 06/18/2018.