228 projects tagged "Bioinformatics"

Download No website Updated 12 Oct 2013 Open Infrastructure for Outcomes

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Pop 82.72
Vit 3.20

OIO is a Web-based metadata/data management front-end which is built using Zope and works with Postgresql. No programming is required to build and manage Web-forms or to perform data mining/analysis on the collected data. It is in production at the Harbor/UCLA Medical Center for clinical outcomes management and research data. Forms created with OIO and hosted on any OIO server can be downloaded as XML files. Once downloaded from the "Forms library" and imported into an OIO server, the necessary database tables are automatically recreated and the imported forms become immediately available to the users of that OIO server.

Download Website Updated 26 Dec 2012 massXpert mass spectrometry package

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Pop 207.70
Vit 16.07

The massXpert software package is a mass spectrometry environment for linear (bio-)polymers. It inherits all the innovations of GNU polyxmass. It allows the detailed definition of new polymer chemistries in the XpertDef module. These chemistry definitions are then used in the desktop calculator-like mass calculator (XpertCalc) and in the sophisticated polymer sequence editor and (bio-)chemical/mass spectrometric simulations module (XpertEdit). Available simulations include polymer and monomer chemical modifications, polymer sequence cleavage, gas-phase fragmentation, m/z ratio calculations, and more.

Download No website Updated 18 Nov 2012 codonPhyML

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Pop 16.25
Vit 23.59

codonPhyML uses Markovian codon models of evolution in phylogeny reconstruction. Given a set of species characterized by their DNA sequences as input, it will return the phylogenetic tree which best describes their evolutionary relationship.

No download Website Updated 28 Oct 2012 Bone Age

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Pop 36.47
Vit 7.43

Bone Age is a tool for radiologists, endocrinologists, and orthopaedic surgeons. It helps in the assessment and monitoring of skeletal age using the standards of Greulich and Pyle (2nd ed. Stanford, CA, 1959).

No download Website Updated 28 Oct 2012 CF Score

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Pop 25.57
Vit 6.55

CF Score is a tool for radiologists and respiratory physicians. It assists in the scoring and monitoring of chest radiographs of patients with cystic fibrosis, using the Brasfield method.

No download Website Updated 28 Oct 2012 Fetal Growth

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Pop 28.57
Vit 6.54

Fetal Growth is a tool for professionals involved in pregnancy assessment for monitoring obstetric measurements over time.

No download Website Updated 28 Oct 2012 Renal Growth

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Pop 27.06
Vit 8.13

Renal Growth is a tool for radiologists and paediatricians to plot renal length and volume measurements against nomograms for age and weight. It allows for multiple observations from birth to 13 years. Individual patient data files can be stored and reused. Length and volume charts can be exported as JPEG files for importing into a PACS system or other clinical record.

Download No website Updated 26 Oct 2012 VPLG

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Pop 21.93
Vit 1.99

Visualization of Protein Ligand Graphs (VPLG) uses a graph-based model to describe the structure of proteins on the super-secondary structure level. A protein-ligand graph is computed from the atomic coordinates in a PDB file and the secondary structure assignments of the DSSP algorithm. In this graph, vertices represent secondary structure elements (SSEs, usually alpha helices and beta strands) or ligand molecules, while the edges model contacts and relative orientations between them. The graphs can be visualized, written to a database, and saved in a text-based file format.

Download Website Updated 29 Sep 2012 Fqutils

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Pop 33.36
Vit 2.01

Fqutils provides a basic set of bioinformatics command line tools for working with sequence data in FASTQ format. It complements Greg Hannon's fine Fastx Toolkit suite. One characteristic of Fqutils is that it correctly handles the full FASTQ format as described by the published standard, which specifically allows multi-line sequence and quality score information per record. Fqutils is intended to be useful as part of the early portions of post-sequencing pipelines and quality assessment processes.

No download No website Updated 25 Sep 2012 Bio::SeqReader

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Pop 20.98
Vit 1.00

Bio::SeqReader provides a lightweight alternative to Bioperl when all you really need is a helper for reading sequence data. The Bio::SeqReader::Fastq class correctly handles FASTQ input with multiline sequence or quality data.

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Open Camera

A camera app for Android.

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mcl-edge

A command-line network analysis workbench.