Search Results for "pdf tool python" - Page 6
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Showing 304 open source projects for "pdf tool python"
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Copy Number Analysis for Targeted Resequencing (CONTRA) is a tool for copy number variation (CNV) detection for targeted resequencing data such as those from whole-exome capture data.
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Theodore is a tool for semi-automated hybrid assembly of genomes, improving assembly quality by combining multiple information sources.
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RTLSDR Scanner
A cross platform Python frequency scanning GUI for rtl-sdr
A cross platform Python frequency scanning GUI for USB TV dongles, using the OsmoSDR rtl-sdr library. In other words a cheap, simple Spectrum Analyser. More information can be found at: http://eartoearoak.com/software/rtlsdr-scanner An installer and standalone versions for Windows are located here: https://github.com/EarToEarOak/RTLSDR-Scanner/releases Sources are available on GitHub: https://github.com/EarToEarOak/RTLSDR-Scanner ** The up to date installer is no longer... -
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...Visit http://www.biomedcentral.com/1471-2164/15/858/abstract for the pdf article describing the utility of iMSAT and if you use the program please cite this article as: Andersen and Mills: iMSAT: a novel approach to the development of microsatellite loci using barcoded Illumina libraries. BMC Genomics 2014 15:858.
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Cut Data Warehouse Costs by 54%BigQuery delivers 54% lower TCO with exabyte scale and flexible pricing. Free migration tools handle the SQL translation automatically.
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Generic directory service (for the EPICS tool set). Directory entries are channels with properties and tags. Applications can query a web service to retrieve channels based on wildcard matching on properties and tags, and manipulate the directory data. Code has been moved to GitHub at https://github.com/ChannelFinder
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SAT-Assembler
Scalable and accurate targeted gene assembly for large-scale NGS data
SAT-Assembler is a scalable and accurate gene assembly tool for large-scale RNA-Seq and metagenomic data. It recovers genes from gene families of particular interest to biologists with high coverage, low chimera rate, and extremely low memory usage compared with exiting gene assembly tools. Moreover, it is naturally compatible with parallel computing platforms. -
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PortOpt
A portfolio-optimizer using Markowitz(1952) mean-variance model
PortOpt [Portfolio Optimizer] is a C++ program (with Python binding) implementing the Markowitz(1952) mean-variance model with agent's linear indifference curves toward risk in order to find the optimal assets portfolio under risk. You have to provide PortOpt (in text files or - if you use the api - using your own code) the variance/covariance matrix of the assets, their average returns and the agent risk preference. -
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ENLY
Bioinformatic tool to improve draft genome assemblies by closing gaps
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ChIP-RNA-seqPRO
ChIP-RNA-sequencing-processing (ChIP-RNA-seqPRO)
ChIP-RNA-seqPRO: A strategy for identifying regions of epigenetic deregulation associated with aberrant transcript splicing and RNA-editing sites. Runnable python scripts packaged together with customized annotation libraries, demo data input and README guide. 9/26 : v1.1 Updated MAIN_IV to debug error thrown by python pandas no longer supporting 'subset'. This code will no longer be actively maintained/updated here. A cloud-based resource for comparative analysis of epigenetic,... -
99.99% Uptime for MySQL and PostgreSQL DatabasesCloud SQL Enterprise Plus delivers near-zero downtime with 35 days of point-in-time recovery. Supports MySQL, PostgreSQL, and SQL Server.
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PyLogAnalyser
A Python multiplatform tool to filter, colorise and analyse logs
...The final goal of this tool is to ameliorate reading long and difficult b/w logs, speed up the analysis and enhance day to day wearying activities. As common application, you can colorise adb logcat logs taking the example files and using them (and also, filter unnecessary lines). You can INSTALL it from PyPI: $ python -m pip install pyloganalyser -
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Graphical tool for managing database of geocaches and waypoints, importing GPX files and exporting geocaches to many formats including GPX, POI, HTML and others.
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mwetoolkit
THIS PROJECT MIGRATED TO https://gitlab.com/mwetoolkit/mwetoolkit3/
...Even though it focuses on multiword expresisons, the framework is quite complete and can also be useful in any corpus-based study in computational linguistics. The mwetoolkit can be applied to virtually any text collection, language, and MWE type. It is a command-line tool written mostly in Python. Its development started in 2010 as a PhD thesis but the project keeps active (see the SVN logs). Up-to-date documentation and details about the tool can be found on the mwetoolkit website: http://mwetoolkit.sourceforge.net/ -
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...A novel particle tracking method with individual particle size measurement and its application to ordering in glassy hard sphere colloids. Soft Matter 9, 1447–1457 (2013). https://dx.doi.org/10.1039/C2SM27107A (http://arxiv.org/pdf/1301.7237.pdf)
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Qfsm
A graphical Finite State Machine (FSM) designer.
A graphical tool for designing finite state machines and exporting them to Hardware Description Languages, such as VHDL, AHDL, Verilog, or Ragel/SMC files for C, C++, Objective-C, Java, Python, PHP, Perl, Lua code generation. -
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LightProfiler
Profiler for Oracle extended SQL trace files
LightProfiler – application for performance analysis of the Oracle databases. It generates detailed resource profile for extended SQL trace files (10046 event), containing information about consuming of response time (by events, by cursors, etc.), data files usage, error analysis (SQL, PL/SQL) and much more. Also it contain tools for additional processing of trace files (extract session data, splitting files) and for management of database's sessions (disconnecting, tracing, monitor... -
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Maximum Common Genome Alignment (MCGA)
Pipeline for creating core genome alignments for phylogenetic analysis
Maximum Common Genome Alignment (MCGA) Tool MCGA is a bioinformatics analysis tool written in Python for generating core genome alignment for bacterial whole genome sequences which can be used to construct phylogenetic trees. -
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QuickNXS
Polarized ToF reflectivity raw data analysis tool
Data evaluation tool for the magnetism reflectometer at the spallation neutron source (BL-4A@SNS). Reads raw nexus files (HDF5) of histogrammed or event mode data to create reflectivity curves and 2D Q-maps. -
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MicrobeGPS
The Explorative Taxonomic Profiling Tool for Metagenomic Data
MicrobeGPS is a bioinformatics tool for the analysis of metagenomic sequencing data. The goal is to profile the composition of metagenomic communities as accurately as possible and present the results to the user in a convenient manner. One main focus is reliability: the tool calculates quality metrics for the estimated candidates and allows the user to identify false candidates easily. -
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This (Python) tool allows you to easily create FPGA bitfiles for your embedded system, from several Open Source IPs (compatibles with the OpenCores Wishbone bus) . It will also generates the corresponding drivers (currently only Linux ones).
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pipasic
pipasic: Protein Abundance Correction in Metaproteomic Data
Metaproteomic analysis allows studying the interplay of organisms or functional groups and has become increasingly popular also for diagnostic purposes. However, difficulties arise due to the high sequence similarity between related organisms. Further, the state of conservation of proteins between species can be correlated with their expression level which can lead to significant bias in results and interpretation. These challenges are similar but not identical to the challenges arising in... -
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*WARNING* gtburst moved to github (https://github.com/giacomov/gtburst). ########################################## gtBurst is a tool to download data, analyze and simulate Gamma-ray Bursts and Solar Flares as observed by the NASA Fermi satellite.
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ADOMA stands for: Alternative Display Of Multiple Alignment. ADOMA can create four different displays of a multiple sequence alignment: a ClustalW alignment in HTML format, a simplified ClustalW alignment in HTML and/or txt format and a colored ClustalW alignment in HTML format. For examples of these outputfiles check the screenshots. ADOMA uses ClustalW to create the multiple alignment from DNA or protein sequences and displays them slightly different than the normal output of ClustalW....
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PhyloTrack
PhyloTrack, D3.js and JBrowse for phylogeny and positioning of samples
PhyloTrack is a JavaScript--based software tool that integrates the D3.js library for data visualization with the JBrowse tool for genome browser representation. It requires a phylogenetic tree of the common Newick data format as input, as well as three meta data files for samples, clade-defining nodes and clade color definitions - all in tab delimited format. Functionality within PhyloTrack shows the informative markers at each node in the phylogenetic tree, therefore highlighting... -
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CONTIGuator is a Python script for Linux environments whose purpose is to speed-up the bacterial genome assembly process and to obtain a first insight of the genome structure using the well-known artemis comparison tool (ACT).
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UniPyRange
Tool to fetch protein/DNA truncation constructs from Uniprot DB
Very simple python script which saves you the pains of counting the amino acids/DNA bases in fasta files from the Uniprot and NCBI RefSeq Database (1, 2). Lets say you want the amino acid sequence of range 128-387 from a 1000 amino acid protein - this script will help you to avoid counting mistakes by just showing you the specified sequence in amino acids and coding DNA base pairs (ideal for amplification primer design) of a specified Uniprot ID. - Requires BioPython (3) and Bioservices...
