Search Results for "python data analysis" - Page 5
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Showing 240 open source projects for "python data analysis"
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Automatic Compound Processing (AuCoPro)
Automatic compound splitting and semantic analysis of compounds
... analysis of compounds; as such, the project will be divided into two interrelated subprojects, to be executed simultaneously. The focus in this project will be on Afrikaans (with Dutch as the closely-related, well-sourced language), which will lay grounds for future work on other closely-related language pairs. -
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Fast Artificial Neural Network Library is a free open source neural network library, which implements multilayer artificial neural networks in C with support for both fully connected and sparsely connected networks. Cross-platform execution in both fixed and floating point are supported. It includes a framework for easy handling of training data sets. It is easy to use, versatile, well documented, and fast. Bindings to more than 15 programming languages are available. An easy to read...
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Forensic Scripts
Forensic scripts for evidence acquisitions, analysis and more
This project contains various scripts and code snippets that can easily be deployed by an incident responder or forensic analyst to aid them in either acquiring or analyzing critical data. You can contact me at: interrupt08@users.sf.net or visit my blog, fork(), at https://forksec.wordpress.com/ -
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BlastConverter
Converter for NCBI-like BLAST output into XML one.
Different applications (for example Blast2GO) uses BLAST results as a starting point to their analysis. From the other hand, fast BLAST machine allows user to get result very fast. The only problem that can user faced on, that there is no convertor between different BLAST format outputs. Blast2Go requires XML-formatted data while decypher does not producing it. This script is a converter for NCBI-like BLAST output into XML one. -
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Audited Objects (AO) is a tool for the analysis and optimization of automated software processes such as builds. It supports reuse of previously built objects, generation of prerequisite data, parallelization, etc.
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ParaSim
Parallelized calculation of molecular similarities
Diversity assessments and comparisons of large compound databases require calculating similarities of millions of compounds in an affordable time. ParaSim addresses this challenge by parallelizing the calculations according to the number of computing cores available on a single machine. It is optimized for the throughput of very large numbers of query structures against very large numbers of reference structures. As as special feature, ParaSim allows to store and and to access frequently... -
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Plinko was originally an experiment with Prefix Trees and log parsing. The general concept is to have a single end point you can send any data to, in a "fire and forget" fashion. Plinko should identify and parse the data completely without the sending system caring what it sent. The latest version supports named fields in the STL files for tagging data parsed in the Prefix Tree and anonymous functions for parsing dynamic message payloads. We now output JSON objects and I'm working on HBase...
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confero
Confero is an Integrated contrast and gene set platform
Confero is an integrated contrast and gene set platform for computational analysis and biological interpretation of omics data. -
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hrefinder
Detection of homologous recombination events from SNP data
This software detects homologous recombination events (HREs) from SNP data. Based on SNP alleles calls and locations, it breaks the genomes into locally colinear blocks, and looks for cases where SNPs do not agree with the vertical pattern of inheritance in a phylogeny. It applies a dynamic programming algorithm to model whether changes within a block are likely a result of mutations, sequencing errors, or HRE. We use information from the nearby SNPs, so that if 1-2 alleles in a series of SNPs... -
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ReferenceFree
Scripts for reference free genomic analysis
These are Python scripts plus C/C++ programs for automating the reference free genomic analysis described in: Kua C-S, Ruan J, Harting J, Ye C-X, Helmus MR, et al. (2012) Reference-Free Comparative Genomics of 174 Chloroplasts. PLoS One 7(11). http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0048995 Analytical concept conceived by CHCannon and CSKua. Original script written in Mathematica by CHCannon. -
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Open-source weather database system for storage of weather/water observations, forecasts, analysis fields, and hindcasts. includes loading program for GRIB files. Visit project website (http://wdb.met.no) for further information. Please note: this project has now moved to http://wdb.met.no
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GenOO-HTS
A Modern Perl Framework for High Throughput Sequencing analysis
GenOO-HTS [jee-noo] is an open-source; object-oriented Perl framework specifically developed for the design of High Throughput Sequencing (HTS) analysis tools. The primary aim of GenOO-HTS is to make simple HTS analyses easy and complicated analyses possible. GenOO-HTS models biological entities into Perl objects and provides relevant attributes and methods that allow for the manipulation of high throughput sequencing data. Using GenOO-HTS as a core development module reduces the overhead... -
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HPeak
A HMM-based algorithm for defining enriched regions from ChIP-seq data
HPeak is a hidden Markov model-based approach that can accurately pinpoint regions to where significantly more sequence reads map. Testing on real data shows that these regions are indeed highly enriched by the right protein binding sites. Command (single-end): perl /compbio/software/HPeak3/HPeak.pl -sp HUMAN/MOUSE -format BED -t TREATMENT.inp -c CONTROL.inp -n OUTPUTPREFIX -fmin 100 -fmax 300 -r 36 -ann -wig -seq -interfiles Command (pair-end): perl /compbio/software/HPeak3/HPeak.pl -sp... -
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A small web application able to generate dynamic charts from data collected by our personal weather station ( like WH-1080 and others ).
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Honeyd2MySQL
Utility to move honeyd.log entries to a MySQL database.
This is yet another simple piece of software that extracts all the basic stats from honeyd’s text-based log files and inserts them in a MySQL database. Then you can run some queries and of course visualize the data if you want to. Many things are hardcoded or dead simple, but it does the job. The file is a modified version of “honeyd_importer” perl script originally writen by Joshua Gimer and shared through “honeypots” mailing list. -
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TARDIS
Personal Data Backup
Here's a 'set it and forget it' backup system which might look rather familiar to the backup solution supplied with a certain well-known fruit based computer.It comes with a configuration interface for KDE's plasma desktop, but it will run on anything else if you're prepared to do some config yourself. Please see the WIKI for installation instructions Thanks to Mike Vaughn, there is now an Ubuntu PPA for installing TARDIS: https://launchpad.net/~mikevaughn/+archive/omnilinux/ -
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Plotmeister is a data exploration tool. It parses your ASCII data and generates a simple (text-based) table format. You can modify this table and eventually create nice looking figures.
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Dreep
DREEP
Detecting low-level mutations by utilizing the re-sequencing error profile of the data -
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SOAPstreaming
Hadoop-based Framework for Analyzing Large Scale NGS Data
SOAPstreaming, a flexible hadoop-based framework for systematically analyzing large scale NGS data. SOAPstreaming uses an enhanced Hadoop streaming strategy of MapReduce model to parallelize tools, which offers great scalability and efficiently reduces running time of large NGS datasets. Moreover, it has nice expansion capability to integrate new tools for different analysis needs, which more and more tools will be added in this framework. -
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LOGalyze CLI
Command line client interface for LOGalyze 4
Command line LOGalyze client. logalyze-cli is a powerful command line client for managing LOGalyze engine. With LOGalyze application log analyzer, you can collect your log data from any device, analyze, normalize and parse them. -
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An integrated bioinformatics toolkit for analysis of ChIPseq data from the Illumina DNA sequencing platform. Includes filtering, quality control, simulation, peakfinding, visualization, and comparison of samples.
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meBiblio
meBiblio is a bibliography tool
meBiblio was specially developed as a small and accessible Python-based bibliography tool. meBiblio can organize your reference library, allows easy search in your references and permits immediate retrieval and examination of digitally stored literature items. It connects to online catalogs as PUBMED to retrieve data. -
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FluxY
FluxY – a processing tool set for stable isotope label MS data
FluxY is a command line based high-throughput processing tool set for stable isotope labelled mass spectral data used for metabolic flux analysis. To get started simply download and unzip the FluxY.zip file and follow the getting started document in the Instructions folder.
