KymoRod 0.10.0 – Matlab Graphical Interface for the Study of Hypocotyl Growth

 Image Analysis 3 views Comments Off on KymoRod 0.10.0 – Matlab Graphical Interface for the Study of Hypocotyl Growth
Jul 192016
 

KymoRod 0.10.0

:: DESCRIPTION

KymoRod is a method for automated kinematic analysis of rod-shaped plant organs.

::DEVELOPER

IJPB Modeling and digital imaging lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows/ MacOsX
  • MatLab

:: DOWNLOAD

 KymoRod

:: MORE INFORMATION

Citation

KymoRod: A method for automated kinematic analysis of rod-shaped plant organs.
Bastien R, Legland D, Martin M, Fregosi L, Peaucelle A, Douady S, Moulia B, Höfte H.
Plant J. 2016 Jun 29. doi: 10.1111/tpj.13255.

MorphoLibJ 1.2.2 – Collection of Mathematical Morphology Methods and Plugins for ImageJ

 Image Analysis 1 views Comments Off on MorphoLibJ 1.2.2 – Collection of Mathematical Morphology Methods and Plugins for ImageJ
Jul 192016
 
MorphoLibJ 1.2.2 - Collection of Mathematical Morphology Methods and Plugins for ImageJ

MorphoLibJ 1.2.2 :: DESCRIPTION The MorphoLibJ library proposes a large collection of generic tools based on mathematical morphology to process binary and grey-level 2D and 3D images, integrated into user-friendly plugins. ::DEVELOPER IJPB Modeling and digital imaging lab :: SCREENSHOTS N/A :: REQUIREMENTS Linux / Windows/ MacOsX Java ImageJ :: DOWNLOAD  MorphoLibJ :: MORE INFORMATION Citation […]

sBWT 1.0b1 – Burrows–Wheeler transform (BWT) based Fast Indexer/Aligner

 Alignment / BLAST 2 views Comments Off on sBWT 1.0b1 – Burrows–Wheeler transform (BWT) based Fast Indexer/Aligner
Jul 192016
 
sBWT 1.0b1 - Burrows–Wheeler transform (BWT) based Fast Indexer/Aligner

sBWT 1.0b1 :: DESCRIPTION sBWT is a Burrows–Wheeler transform (BWT) based fast indexer/aligner specialized in parallelized indexing and searching for Next Generation Sequencing data. ::DEVELOPER sBWT team :: SCREENSHOTS N/A :: REQUIREMENTS Linux C++ compiler :: DOWNLOAD  sBWT :: MORE INFORMATION Citation sBWT: Memory Efficient Implementation of the Hardware-acceleration-friendly Schindler Transform for the Fast Biological Sequence […]

cisASE – Detecting Putative Cis-regulated Allele-specific Expression in RNA Sequencing data

 RNA Analysis 4 views Comments Off on cisASE – Detecting Putative Cis-regulated Allele-specific Expression in RNA Sequencing data
Jul 192016
 
cisASE - Detecting Putative Cis-regulated Allele-specific Expression in RNA Sequencing data

cisASE :: DESCRIPTION cisASE is a likelihood-based method for ASE detection at multiple levels(SNV,exon and gene). It takes matched DNA sequencing data as reference to reduce artifacts from technical bias and copy number variation to identify ASE due to cis-acting elements, and it works almost as well for dataset without DNA sequencing. ::DEVELOPER cisASE team […]

MEMHDX – Mixed Effects Models for HDX-MS analysis

 Miscellaneous 2 views Comments Off on MEMHDX – Mixed Effects Models for HDX-MS analysis
Jul 192016
 
MEMHDX - Mixed Effects Models for HDX-MS analysis

MEMHDX :: DESCRIPTION MEMHDX is a new R-package to help users analyze, validate and visualize large HDX-MS datasets. ::DEVELOPER MEMHDX team :: SCREENSHOTS N/A :: REQUIREMENTS Web browser :: DOWNLOAD  NO :: MORE INFORMATION Citation MEMHDX: An interactive tool to expedite the statistical validation and visualization of large HDX-MS datasets. Hourdel V, Volant S, O’Brien […]

BioPartsBuilder – Synthetic Biology tool for Combinatorial Assembly of Biological Parts

 Miscellaneous 13 views Comments Off on BioPartsBuilder – Synthetic Biology tool for Combinatorial Assembly of Biological Parts
Jul 192016
 
BioPartsBuilder - Synthetic Biology tool for Combinatorial Assembly of Biological Parts

BioPartsBuilder :: DESCRIPTION BioPartsBuilder is a web design tool for the design of biological parts for combinatorial assembly. The software is designed to assist synthetic biologists in retrieving biological sequences, design and optimize biological parts for Golden-Gate. ::DEVELOPER BioPartsBuilder team :: SCREENSHOTS N/A :: REQUIREMENTS Linux :: DOWNLOAD  BioPartsBuilder :: MORE INFORMATION Citation BioPartsBuilder: a […]

BioPartsDB – DNA Synthesis Workflow System for Synthetic Biology

 Miscellaneous 1 views Comments Off on BioPartsDB – DNA Synthesis Workflow System for Synthetic Biology
Jul 192016
 
BioPartsDB - DNA Synthesis Workflow System for Synthetic Biology

BioPartsDB :: DESCRIPTION BioPartsDB is an open-source, modular tool for DNA synthesis workflow and parts registration, ready to be used in most scenarios, such as molecular biology laboratories or iGem teams. ::DEVELOPER BioPartsDB team :: SCREENSHOTS N/A :: REQUIREMENTS Linux :: DOWNLOAD  BioPartsDB :: MORE INFORMATION Citation BioPartsDB: a synthetic biology workflow web-application for education […]

LightAssembler – Lightweight Resources Assembly Algorithm

 Assembly Tools 8 views Comments Off on LightAssembler – Lightweight Resources Assembly Algorithm
Jul 192016
 
LightAssembler - Lightweight Resources Assembly Algorithm

LightAssembler :: DESCRIPTION LightAssembler is a lightweight assembly algorithm designed to be executed on a desktop machine. It uses a pair of cache oblivious Bloom filters, one holding a uniform sample of g-spaced sequenced k-mers and the other holding k-mers classified as likely correct, using a simple statistical test. ::DEVELOPER Sara El-Metwally :: SCREENSHOTS N/A […]

LAMPLINK – Detection of Statistically Significant Epistatic Interactions

 Genetics & Pedigree 1 views Comments Off on LAMPLINK – Detection of Statistically Significant Epistatic Interactions
Jul 192016
 
LAMPLINK - Detection of Statistically Significant Epistatic Interactions

LAMPLINK :: DESCRIPTION The LAMPLINK can detect statistically significant epistatic interactions of two or more SNPs from GWAS data. This software can be used in the same way as the widely used GWAS analysis software PLINK, but LAMPLINK has the additional options for the detection of epistatic interactions with LAMP, which is a multiple testing […]

LocFuse – Human protein-protein Interaction Prediction

 System Biology & Modeling 14 views Comments Off on LocFuse – Human protein-protein Interaction Prediction
Jul 192016
 
LocFuse - Human protein-protein Interaction Prediction

LocFuse :: DESCRIPTION LocFuse is a novel ensemble learning method of human protein-protein interaction prediction via classifier fusion using protein localization information. ::DEVELOPER Laboratory of Systems Biology & Bioinformatics (LBB) :: SCREENSHOTS N/A :: REQUIREMENTS Windows / Linux JRE :: DOWNLOAD  LocFuse :: MORE INFORMATION Citation LocFuse: human protein-protein interaction prediction via classifier fusion using protein […]