ACME v1 – Efficient Parallel Motif Extraction from Very Long Sequences

ACME v1

:: DESCRIPTION

ACME (Advanced parallel motif extractor) is an advanced parallel motif extractor. ACME arranges the search space in contiguous blocks that take advantage of the cache hierarchy in modern architectures, and achieves almost an order of magnitude performance gain in serial execution.

::DEVELOPER

InfoCloud Research Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / MacOsX / Linux
  • C++ Compiler

:: DOWNLOAD

 ACME

:: MORE INFORMATION

Citation:

Majed Sahli, Essam Mansour, Panos Kalnis:
ACME: Efficient Parallel Motif Extraction from Very Long Sequences.
Technical Report

ACME 2.24.0 – Algorithms for Calculating Microarray Enrichment

ACME 2.24.0

:: DESCRIPTION

ACME is a set of tools for analysing tiling array ChIP/chip, DNAse hypersensitivity, or other experiments that result in regions of the genome showing “enrichment”.

::DEVELOPER

Sean Davis @NCI

:: SCREENSHOTS

N/A

::REQUIREMENTS

  • Linux/ Windows/ MacOsX
  • R package
  • BioConductor

:: DOWNLOAD

 ACME

:: MORE INFORMATION

Citation

Methods Enzymol. 2006;411:270-82.
Statistics for ChIP-chip and DNase hypersensitivity experiments on NimbleGen arrays.
Scacheri PC, Crawford GE, Davis S.

ACME – Automated Cell Morphology Extraction

ACME

:: DESCRIPTION

ACME is a state-of-the-art open-source C++ software for reconstructing membranes to achieve high-quality whole cell segmentations. The software enables the quantification of cell morphologies, cell size, tissue interfaces, arrangement in tightly-packed tissues, and tissue geometry from time-lapse image sequences. The software is generic, modular, scalable to large datasets, and provides an easy API for interfacing with other software systems.

::DEVELOPER

the Megason Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / MacOSX /Linux

:: DOWNLOAD

 ACME

:: MORE INFORMATION

Citation

ACME: Automated Cell Morphology Extractor for Comprehensive Reconstruction of Cell Membranes.
Mosaliganti KR, Noche RR, Xiong F, Swinburne IA, Megason SG.
PLoS Comput Biol. 2012 Dec;8(12):e1002780. doi: 10.1371/journal.pcbi.1002780. Epub 2012 Dec 6.