Search Results for "sensitivity"
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Showing 14 open source projects for "sensitivity"
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BBMap
BBMap short read aligner, and other bioinformatic tools.
...BBMap: Short read aligner for DNA and RNA-seq data. Capable of handling arbitrarily large genomes with millions of scaffolds. Handles Illumina, PacBio, 454, and other reads; very high sensitivity and tolerant of errors and numerous large indels. Very fast. BBNorm: Kmer-based error-correction and normalization tool. Dedupe: Simplifies assemblies by removing duplicate or contained subsequences that share a target percent identity. Reformat: Reformats reads between fasta/fastq/scarf/fasta+qual/sam, interleaved/paired, and ASCII-33/64, at over 500 MB/s. ... -
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DownSmith Markdown Editor
A powerful, feature-rich Markdown editor with real-time HTML preview.
DownSmith provides an intuitive editing experience with comprehensive formatting tools, syntax highlighting, live preview, table creation, spell checking, footnotes, HTML export, and intelligent image handling. Runs without Java being installed on Windows. On macOS and Linux requires Java 11 or better installed. A Java 8 version is provided that has all the functionality of the Java 11 version except footnotes. -
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BisSNP
Bisulfite-seq/NOMe-seq SNPs & cytosine methylation caller
...It uses bayesian inference with either manually specified or automatically estimated methylation probabilities of different cytosine context(not only CpG, CHH, CHG in Bisulfite-seq, but also GCH et.al. in other bisulfite treated sequencing) to determine genotypes and methylation levels simultaneously. It works for both of single-end and paired-end reads.Specificity and sensitivity has been validate by Illumina IM SNP array. In default threshold 30X data (Phred scale score > 20), it could detect 92.21% heterozygous SNPs with 0.14% false positive rate Cytosine calling is not only based on reference context, so it could detect non-reference cytosine context. Google group for help: http://goo.gl/zL7Nj -
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CS:GO Multi Script
Multi scripts for CS:GO that do just about everything
I have not posted any of the code yet, I'm working on it locally then will push everything. This is not to be used in game (maybe deathmatch only :stuck_out_tongue:), but rather is meant to have some with the features that Java provides. I included all source so that you can see what I used. This is a great project to learn about global event listener, JRobot, JavaFX, etc... Most of the people said this just makes it harder to play the game, so it's not fantastic. The only thing I... -
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MWLL Actionmapper java frontend for changing keys in Mechwarrior Living Legends. Starting with MWLL v0.3 the latest versions of the Actionmaper will be included with releases of the mod.
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GESPA
Accurately predicts disease association of single nucleotide mutations
GESPA (GEnomic Single nucleotide Polymorphism Analyzer) is a bioinformatics tool for classifying Nonsynonymous Single Nucleotide Polymorphisms (nsSNPs). GESPA predicts if a nsSNP is pathogenic using reports from literature and various algorithms to assess conservation in orthologous and paralogous protein alignments. Using reports from literature, GESPA is also able to predict the phenotype of a nsSNP with high accuracy. The software can be used clinically to determine if observed nsSNPs are... -
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argument
Command line argument parser library for Java
Moved to GitHub https://github.com/fedups Command-line argument compiler and parser. With just two lines of code you can start to set up a command-line interface to your Java programs. Many advanced features including "required", "positional", "multiple", and the most advanced - "group" -
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Sphinx SD Tools
Common accessible environment for system dynamics simulation.
The Sphinx project is dedicated to create common accessible environment for system dynamics simulation. This software is developed on Java 6 platform and use Java Swing GUI. -
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PIN
Provenance in NetLogo
This tool can trace, capture, query and visualize the dependency provenance in NetLogo. It consists of four main components: a source code analyzer used to automatically add probes to the model's source code, a NetLogo extension for capturing the provenance traces generated from probes, a non-preprocessing (NP) provenance slicing technique for computing provenance slices using provenance traces, and a visualization component for visualizing the provenance slices. It is compatible with... -
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BPMN extension for Cloud computing
java project for modifying jBPM models into cloud aware models
Program based on created BPMN 2.0 Cloud extension. It reads a model *.bpmn, which was created using jBPM BPMN 2.0 modeling tool. Then user is able to define a sensitivity of data elements. After that an Ontology is created and filled in with model elements. Special logical rules process the data. User is able to additionally define the security level. The resulting model is created and can be opened in the jBPM. -
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The Open Decision Makes enables you to find the best alternative for a defined goal with the AHP (Analytic Hierarchy Process) method.
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This is a project to model out different option scenarios using Java and price them accordingly. The hope is to take this practice out of wall street's hands and allow everyone to price and run sensitivity analysis without paying an analyst.
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Program described in the paper: MUDE: A new approach for optimizing sensitivity in the target-decoy search strategy for large-scale peptide/protein identification, 2010. By Cerqueira, Fabio; Graber, Armin; Schwikowski, Benno; Baumgartner, Christian.
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