Tools   Select Another Resource Report Type

http://glare.sourceforge.net/

A software that facilitates and improves the design of chemical combinatorial libraries.

Proper citation: GLARE (RRID:SCR_012083) Copy   

•   Source: SciCrunch Registry

http://mfpaq.sourceforge.net/

Software that allows fast and user-friendly verification of Mascot result files, as well as data quantification using isotopic labeling methods (SILAC/ICAT) or label free approaches (spectral counting, MS signal comparison).

Proper citation: MFPaQ (RRID:SCR_012049) Copy   

•   Source: SciCrunch Registry

http://proteowizard.sourceforge.net/

Software that enables rapid tool creation by providing a robust, pluggable development framework that simplifies and unifies data file access, and performs standard proteomics and LCMS dataset computations.

Proper citation: ProteoWizard (RRID:SCR_012056) Copy   

•   Source: SciCrunch Registry

http://sourceforge.net/projects/adtex/

A software tool for copy number variation (CNV) detection for whole-exome data from paired tumour/matched normal samples.

Proper citation: ADTEx (RRID:SCR_012059) Copy   

•   Source: SciCrunch Registry

http://sourceforge.net/projects/multiplierz/

An open-source Python-based environment that provides a scriptable framework for efficient access to manufacturers'' proprietary data files via mzAPI.

Proper citation: multiplierz (RRID:SCR_012058) Copy   

•   Source: SciCrunch Registry

http://sourceforge.net/projects/te-locate/

A software tool to locate all copies of sequences in a reference sequence using read-pairs.

Proper citation: TE-locate (RRID:SCR_012063) Copy   

•   Source: SciCrunch Registry

http://sourceforge.net/projects/laitor/

A text mining software developed to find co-occurrence of biological entities (gene/protein terms) together with biointeractions and concepts term from customized dictionaries.

Proper citation: LAITOR (RRID:SCR_012101) Copy   

•   Source: SciCrunch Registry

http://matnmr.sourceforge.net/

A highly flexible software toolbox for processing 1D and 2D NMR and EPR spectra under MATLAB, creating high-quality 1D, 2D or 3D plots from the spectra and printing them in every type of format that is supported by MATLAB.

Proper citation: MatNMR (RRID:SCR_012060) Copy   

•   Source: SciCrunch Registry

http://mzmine.sourceforge.net/

Software for mass-spectrometry data processing, with the main focus on LC-MS data.

Proper citation: MZmine (RRID:SCR_012040) Copy   

•   Source: SciCrunch Registry

http://sourceforge.net/projects/exorca/

A Matlab package extending the scope of established COBRA metabolic modelling.

Proper citation: ORCA (RRID:SCR_012097) Copy   

•   Source: SciCrunch Registry

http://opencobra.sourceforge.net/openCOBRA/Welcome.html

Software Python package that provides support for basic COnstraint-Based Reconstruction and Analysis (COBRA) methods.

Proper citation: COBRApy (RRID:SCR_012096) Copy   

•   Source: SciCrunch Registry

http://knowtator.sourceforge.net/

A general-purpose text annotation tool that is integrated with the Prot����g���� knowledge representation system.

Proper citation: Knowtator (RRID:SCR_012099) Copy   

•   Source: SciCrunch Registry

http://sourceforge.net/projects/pb-jelly/

Software that automates the finishing process using long sequence reads in a reference-guided assembly process.

Proper citation: PBJelly (RRID:SCR_012091) Copy   

•   Source: SciCrunch Registry

http://sourceforge.net/projects/dical-ibd/

Software tool for detecting identity-by-descent (IBD) tracts between pairs of genomic sequences.

Proper citation: diCal-IBD (RRID:SCR_012111) Copy   

•   Source: SciCrunch Registry

http://sourceforge.net/projects/ionwinze/

Software tool to pick out ion signals that discriminate two groups of samples (e.g. diseased/healthy, resistant/susceptible) by quasi-datapoint-wise comparison using univariate statistic procedures.

Proper citation: Ionwinze (RRID:SCR_012115) Copy   

•   Source: SciCrunch Registry

http://sourceforge.net/projects/genosight/

An adaptive imaging cytometry software environment.

Proper citation: GenoSIGHT (RRID:SCR_012119) Copy   

•   Source: SciCrunch Registry

http://sourceforge.net/projects/isdtool/files/ISDTool-2.0/

Software that implements a computational model for predicting immunosuppressive domains (ISDs). The software could be used to identify typical ISDs in retroviruses including HERV, HTLV, HIV, STLV, SIV and MLV.

Proper citation: ISDTool (RRID:SCR_012125) Copy   

•   Source: SciCrunch Registry

http://sourceforge.net/projects/ngopt/

Software that produces high quality microbial genome assemblies on a laptop computer without any parameter tuning. A5-miseq does this by automating the process of adapter trimming, quality filtering, error correction, contig and scaffold generation, and detection of misassemblies. Unlike the original A5 pipeline, A5-miseq can use long reads from the Illumina MiSeq, use read pairing information during contig generation, and includes several improvements to read trimming.

Proper citation: A5-miseq (RRID:SCR_012148) Copy   

•   Source: SciCrunch Registry

http://sourceforge.net/projects/ec2kegg/

A perl-based package to perform comparative analysis of metabolic pathways between two organisms.

Proper citation: EC2KEGG (RRID:SCR_012127) Copy   

•   Source: SciCrunch Registry

http://sourceforge.net/projects/cnvcapseq/

Software for accurate and sensitive CNV discovery and genotyping in long-range targeted resequencing.

Proper citation: cnvCapSeq (RRID:SCR_012126) Copy   

•   Source: SciCrunch Registry