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samtools

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  Analyzed 8 months ago

SAM (Sequence Alignment/Map) is a flexible generic format for storing nucleotide sequence alignment. SAM tools provide efficient utilities on manipulating alignments in the SAM format.

25.7K lines of code

14 current contributors

8 months since last commit

4 users on Open Hub

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0.0
 
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picard

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  Analyzed 11 months ago

A set of tools (in Java) for working with next generation sequencing data in the BAM (http://samtools.sourceforge.net) format.

77.6K lines of code

0 current contributors

about 3 years since last commit

2 users on Open Hub

Activity Not Available
5.0
 
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Licenses: No declared licenses

pysam

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  Analyzed about 1 month ago

Pysam is a python module for reading and manipulating Samfiles. It's a lightweight wrapper of the samtools C-API. Pysam also includes an interface for tabix.

132K lines of code

14 current contributors

4 months since last commit

2 users on Open Hub

Activity Not Available
4.0
   
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Collagene

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  Analyzed about 1 month ago

Software for cloning

13.5K lines of code

0 current contributors

about 2 years since last commit

1 users on Open Hub

Activity Not Available
0.0
 
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bio-bwa

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  Analyzed about 1 month ago

14.8K lines of code

1 current contributors

about 1 year since last commit

1 users on Open Hub

Activity Not Available
0.0
 
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Exome Variant Analysis

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  Analyzed 8 months ago

Exome Variant Analysis Pipeline (NGS Data). Developed in R language, calling external programs for specific tasks. It can be run in parallel using many processors from the same machine, and can be easily extended to run in computer clusters (HPC). Still in its early stages, it's a work in progress ... [More] that is being used already for production in some research centers. Features: * Quality Control * Mapping in a reference genome * Tasks related to variants: ** Calling ** Filtering ** Annotating ** Reporting effects and basic statistics * Sending an email once the run is finished. More information: ueb(a)vhir.org [Less]

2.31K lines of code

0 current contributors

about 4 years since last commit

1 users on Open Hub

Activity Not Available
5.0
 
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Licenses: CC-BY-SA-3.0, LGPL-3.0+

extellect-utils

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  Analyzed about 1 year ago

A free library of helpful classes that (at the time of writing) I feel are missing from the major libraries such as Microsoft's .NET Framework, Spring.NET and log4net. These types are intended to increase your productivity by letting you reuse something that somebody else has already written and ... [More] unit tested. Please give me any feedback you might have; negative is welcomed as much as positive at this stage! Jono [Less]

5.38K lines of code

1 current contributors

about 2 years since last commit

0 users on Open Hub

Activity Not Available
0.0
 
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Blat-like Fast Accurate Search Tool

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  Analyzed about 1 month ago

BFAST facilitates the fast and accurate mapping of short reads to reference sequences, where mapping billions of short reads with variants is of utmost importance.

38K lines of code

0 current contributors

over 5 years since last commit

0 users on Open Hub

Activity Not Available
0.0
 
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Licenses: No declared licenses

microbial-phenotype-database

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  No analysis available

The Microbial Phenotype Ontology and Database is an effort to bring a well-defined controlled vocabulary to the assignment of properties to various microbes (predominantly Bacteria & Archaea). Aside from a formal ontology of terms, software and human curation of term-specie associations are being developed.

0 lines of code

0 current contributors

0 since last commit

0 users on Open Hub

Activity Not Available
0.0
 
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Mostly written in language not available
Licenses: GPL-2.0+

sequencing

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  Analyzed about 1 year ago

This project sequences a give set of DNA sequences against Arabidopsis CDS file in TAIR database. It is useful if you want to know how good is your PCR results. The inputs are

930 lines of code

0 current contributors

over 9 years since last commit

0 users on Open Hub

Activity Not Available
0.0
 
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