Curator Dashboard

Software for medical image processing. Use Mimics for the segmentation of 3D medical images (coming from CT, MRI, microCT, CBCT, Ultrasound, Confocal Microscopy) and the result will be highly accurate 3D models of your patient''s anatomy. You can then use these patient-specific models for a variety of engineering applications directly in Mimics or 3-matic, or export the 3D models and anatomical landmark points to 3rd party software, like statistical, CAD, or FEA packages.

• Resource
• SciCrunch
• 13 years ago - by Anonymous

The IITC Plantar Analgesia Meter for thermal paw can be used on 12 mice, 6 rats and other animals (cats, rabbits) unrestrained when testing for narcotic drugs. Experiments are easy to perform, simply slide the test head under test subject, align the heat source via our exclusive guide light (idle state) by the attached, adjustable, angled mirror on test head to test subject and perform tests.

• Resource
• SciCrunch
• 13 years ago - by Anonymous

Temperature datalogger compatible with 7 types of thermocouples. This dual input thermometer accepts Types J, K, E, T, R, S, and N thermocouples. RS-232 port to transfer data to PC for analysis (PC software and cable included)

• Resource
• SciCrunch
• 13 years ago - by Anonymous

fMRI Joystick that is completely RF radiation free. It responds just like any other PC compatible joystick. The joystick is capable of standard X and Y axis but the Z-axis (swivel) is also available. The operation of the joystick is based on unique fiberoptic technology that allows for high resolution tracking. The joystick interfaces with the PC via the fMRI Joystick module. User can use the operating systems standard Joystick software utility to calibrate the joystick to their needs. Two standard buttons, the thumb button and the trigger button, but more can be added depending on customers specifications.

• Resource
• SciCrunch
• 13 years ago - by Anonymous

Data sets derived from paleo proxy evidence, including ice cores, tree rings, ocean and lake sediments, corals, cave deposits, loess, climate models. Includes raw data and reconstructions of past climate and environment.

• Resource
• SciCrunch
• 13 years ago - by Anonymous

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.

• Resource
• SciCrunch
• 12 years ago - by Anonymous

A fast and scalable local network alignment software tool for the identification of functionally conserved modules in multiple networks. LocalAli outperforms all existing algorithms in terms of coverage, consistency and scalability, meanwhile retains a high precision in the identification of functionally coherent subnetworks.

• Resource
• SciCrunch
• 12 years ago - by Anonymous

Software that predicts HLA haplotype by hierarchically weighting reads and using an iterative, greedy, top down pruning technique. HLAforest uses BioPerl to read in FASTA files. Alignments use Bow tie, although any alignment tool can be used to generate SAM alignments for use as input to HLAforest.

• Resource
• SciCrunch
• 12 years ago - by Anonymous

Software that can consistently estimate the topology and branch lengths (in coalescent units) of the species tree. Although the pseudo-likelihood is derived from coalescent theory, and assumes no gene flow or horizontal gene transfer (HGT), the MP-EST method is robust to a small amount of HGT in the dataset. In addition, increasing the number of genes does not increase the computational time substantially. The MP-EST method is fast for analyzing datasets that involve a large number of genes but a moderate number of species.

• Resource
• SciCrunch
• 12 years ago - by Anonymous

A software package of utilities for data extraction, quality control assessment, detection of overlapping and unique metabolites in multiple datasets, and batch annotation of metabolites. xMSanalyzer comprises of utilities that can be classified into five main modules: 1) merging apLCMS or XCMS sample processing results from multiple sets of parameter settings, 2) evaluation of sample quality, feature consistency, and batch-effect, 3) feature matching, and 4) characterization of m/z using KEGG REST; 5) Batch-effect correction using ComBat.

• Resource
• SciCrunch
• 12 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on October 30,2023. Core facility provides consultancy services as well as contract work in all areas of bioinformatics, chemoinformatics and systems biology.

• Resource
• SciCrunch
• 14 years ago - by Anonymous

A bioinformatical software tool for analyzing (quantitative) phosphoproteome datasets. The program retrieves kinase-substrate predictions from NetworKIN and contains various statistical modules for futher analysis.

• Resource
• SciCrunch
• 12 years ago - by Anonymous

A Java-based standalone application for predicting both general and kinase-specific protein phosphorylation sites.

• Resource
• SciCrunch
• 12 years ago - by Anonymous

Software that predicts the wide selection of 88 different types of the single amino acid post-translational modifications (PTM) in protein sequences. The source code and precompiled binaries of brainstorming tool are available under Apache licensing.

• Resource
• SciCrunch
• 12 years ago - by Anonymous

Software for clustering time-evolving networks.

• Resource
• SciCrunch
• 12 years ago - by Anonymous

A computational software tool to predict leucine-rich nuclear export signals (NESs) by using profiles that had been further optimized by training and combining the amino acid properties of the NES-flanking regions. It is a multiplatform command-line Perl application with activity-based NES profiles.

• Resource
• SciCrunch
• 12 years ago - by Anonymous

Software that builds on probability theory to visualize significant conserved sequence patterns in multiple peptide sequence alignments against background (reference) sequence sets that can be tailored to the studied system and the used protocol.

• Resource
• SciCrunch
• 12 years ago - by Anonymous

A pipeline of software programs to design and analyze PCR primers. It is built in Python using the open-source PyCogent toolkit.

• Resource
• SciCrunch
• 12 years ago - by Anonymous

A python program that uses the polymorphism data obtained from mapping individual Illumina sequence reads onto a reference genome to identify polymorphic STRs.

• Resource
• SciCrunch
• 12 years ago - by Anonymous

A set of software tools to simplify the range of computational activities involved in regulatory network inference. It is technology-independent and includes an interface layer to allow easy integration of components into other applications. It is implemented in MATLAB and is available for all researchers to use.

• Resource
• SciCrunch
• 12 years ago - by Anonymous