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On page 16 showing 301 ~ 320 out of 436 results
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    • RRID:SCR_001916

    This resource has 1+ mentions.

http://sourceforge.net/projects/denovoassembler/files/

Software that assembles reads obtained with new sequencing technologies (Illumina, 454, SOLiD) using MPI 2.2.

Proper citation: Ray (RRID:SCR_001916) Copy   

    • RRID:SCR_002133

    This resource has 10+ mentions.

http://cakesomatic.sourceforge.net/

A bioinformatics software pipeline that integrates four publicly available somatic variant-calling algorithms to identify single nucleotide variants with higher sensitivity and accuracy than any one algorithm alone.

Proper citation: Cake (RRID:SCR_002133) Copy   

    • RRID:SCR_002163

http://sourceforge.net/projects/matchprot/

A pairwise protein structure alignment software.

Proper citation: Matchprot (RRID:SCR_002163) Copy   

    • RRID:SCR_013169

    This resource has 1000+ mentions.

http://easyfig.sourceforge.net/

A Python application for creating linear comparison figures of multiple genomic loci with an easy-to-use graphical user interface (GUI).

Proper citation: Easyfig (RRID:SCR_013169) Copy   

    • RRID:SCR_013283

    This resource has 100+ mentions.

http://microbiomeutil.sourceforge.net/#A_CS

A chimeric sequence detection utility, compatible with near-full length Sanger sequences and shorter 454-FLX sequences (~500 bp).

Proper citation: ChimeraSlayer (RRID:SCR_013283) Copy   

    • RRID:SCR_013206

http://sourceforge.net/projects/telescoper/

An algorithm that iteratively extends long paths through a series of read-overlap graphs and evaluates them based on a statistical framework.

Proper citation: Telescoper (RRID:SCR_013206) Copy   

    • RRID:SCR_013174

    This resource has 1+ mentions.

http://sourceforge.net/projects/palfinder/

A perl script that finds microsatellite repeat elements directly from raw 454 or Illumina paired-end sequencing reads.

Proper citation: palfinder (RRID:SCR_013174) Copy   

    • RRID:SCR_013179

http://sourceforge.net/projects/samcomp/

A simple arithmetic coding based compressor for the SAM and BAM (DNA sequence alignment) file format.

Proper citation: sam comp (RRID:SCR_013179) Copy   

    • RRID:SCR_013212

http://sourceforge.net/projects/heuraa/

Software for accurate and fast detection of genetic variations with a novel heuristic amplicon aligner program for next generation sequencing.

Proper citation: HeurAA (RRID:SCR_013212) Copy   

    • RRID:SCR_013171

http://sourceforge.net/projects/bisreadmapper/

Fast and lightweight package for mapping bisulfite converted DNA sequencing reads from the Illumina platform.

Proper citation: bisReadMapper (RRID:SCR_013171) Copy   

http://sourceforge.net/projects/celeragb/

Software developed at Celera Genomics as part of Celera''s sequencing and annotation of the human genome, and released as open source in 2006.

Proper citation: Celera Genome Browser (RRID:SCR_013093) Copy   

    • RRID:SCR_013223

    This resource has 50+ mentions.

http://sourceforge.net/projects/socs/

Performs ungapped alignment of SOLiD (color space) sequencing reads against reference sequences.

Proper citation: SOCS (RRID:SCR_013223) Copy   

    • RRID:SCR_013114

http://sourceforge.net/projects/denovosolid/

Pipeline for small genome assembly using SOLiD sequencing technology.

Proper citation: DSP (RRID:SCR_013114) Copy   

    • RRID:SCR_013194

    This resource has 100+ mentions.

http://sourceforge.net/projects/tuxe/

Software that manages the RNA-sequencing pipeline based on the TopHat suite of software automatically.

Proper citation: Tuxedo (RRID:SCR_013194) Copy   

    • RRID:SCR_013294

http://seqtracs.sourceforge.net/

Software for a Laboratory Information Management System (LIMS) for tracking, organizing, and accessing sequencing requests and ABI trace files produced by a centralized sequencing core facility.

Proper citation: SeqTRACS (RRID:SCR_013294) Copy   

    • RRID:SCR_013306

    This resource has 1+ mentions.

http://bowtie-bio.sourceforge.net/crossbow/index.shtml

A scalable software pipeline for whole genome resequencing analysis.

Proper citation: Crossbow (RRID:SCR_013306) Copy   

    • RRID:SCR_011890

    This resource has 1+ mentions.

http://ebardenovo.sourceforge.net/

Highly accurate de novo assembly of RNA-Seq with efficient chimera-detection.

Proper citation: EBARDenovo (RRID:SCR_011890) Copy   

    • RRID:SCR_011861

    This resource has 1+ mentions.

http://sourceforge.net/apps/mediawiki/seqgene/?title=SeqGene

An open-source software for mining next-gen sequencing datasets, focusing on post-alignment quality control, SNP and indel identification and annotation, RNA expression quantification, etc.

Proper citation: SeqGene (RRID:SCR_011861) Copy   

    • RRID:SCR_011866

http://bayescall.sourceforge.net/

An efficient model-based base-calling algorithm for high-throughput sequencing.

Proper citation: naiveBayesCall (RRID:SCR_011866) Copy   

    • RRID:SCR_012107

    This resource has 50+ mentions.

http://scalpel.sourceforge.net/

A software package for detecting INDELs (INsertions and DELetions) mutations in a reference genome which has been sequenced with next-generation sequencing technology (e.g., Illumina).

Proper citation: Scalpel (RRID:SCR_012107) Copy   

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