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on page 1 showing 20 out of 2,462 results from 1 sources


Cite this ((at)Note, RRID:SCR_005342)

URL: http://darwin.di.uminho.pt/anote2/wiki/index.php/Main_Page

Resource Type: Resource, software resource, software application, text-mining software

THIS RESOURCE IS NO LONGER AVAILABLE. Documented September 18, 2017

Text Mining platform that copes with major Information Retrieval and Information Extraction tasks and promotes multi-disciplinary research. It aims to provide support to three different usage roles: biologists, text miners and application developers. The workbench supports the retrieval, processing and annotation of documents as well as their analysis at different levels.

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Cite this (4Peaks, RRID:SCR_000015)

URL: http://nucleobytes.com/index.php/4peaks

Resource Type: Resource, software resource, software application

Software application for viewing and editing sequence trace files.

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Cite this (A5-miseq, RRID:SCR_012148)

URL: http://sourceforge.net/projects/ngopt/

Resource Type: Resource, software resource

Software that produces high quality microbial genome assemblies on a laptop computer without any parameter tuning. A5-miseq does this by automating the process of adapter trimming, quality filtering, error correction, contig and scaffold generation, and detection of misassemblies. Unlike the original A5 pipeline, A5-miseq can use long reads from the Illumina MiSeq, use read pairing information during contig generation, and includes several improvements to read trimming.

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Cite this (A5, RRID:SCR_013068)

URL: http://code.google.com/p/ngopt/wiki/A5PipelineREADME

Resource Type: Resource, software resource

A pipeline for assembling DNA sequence data generated on the Illumina sequencing platform.

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Cite this (AACC, RRID:SCR_011999)

URL: http://www.aacc.org/Pages/default.aspx

Resource Type: Resource, portal, community building portal, data or information resource

An international society comprised of medical professionals with an interest in clinical chemistry, clinical laboratory science, and laboratory medicine.

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Cite this (ABACUS, RRID:SCR_013039)

URL: http://www.dei.unipd.it/~sambofra/abacus.html

Resource Type: Resource, software resource

An Algorithm based on a BivAriate CUmulative Statistic to identify SNPs significantly associated with a disease within predefined sets of SNPs such as pathways or genomic regions.

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Cite this (ABMapper, RRID:SCR_010242)

URL: http://hkbic.cuhk.edu.hk/software/abmapper

Resource Type: Resource, software resource

A portable, easy-to-use package for spliced alignment, junction site detection, and reads mapping. The core module was written in C++ and wrapped in PERL scripts.

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Cite this (AbMining ToolBox, RRID:SCR_000090)

URL: http://sourceforge.net/projects/abmining/

Resource Type: Resource, software resource

Python scripts to analyze antibody libraries sequenced by next generation sequencing methods (454, Ion Torrent, MiSeq).

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Cite this (ABNER, RRID:SCR_011868)

URL: http://pages.cs.wisc.edu/~bsettles/abner/

Resource Type: Resource, software resource

A software tool for molecular biology text analysis. At ABNER''s core is a statistical machine learning system using linear-chain conditional random fields (CRFs) with a variety of orthographic and contextual features.

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Cite this (ABrowse, RRID:SCR_000345)

URL: http://www.abrowse.org/

Resource Type: Resource, software resource

A genome browser framework which gives an open browsing experience, open data access, collaborative work support, and a framework to import annotations. Multiple data access approaches are supported for external platforms to retrieve data from ABrowse. This resource also contains an online user-space in which users can create, store and share comments, annotations and landmarks.

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Cite this (AbsCN-seq, RRID:SCR_006409)

URL: http://bioinformatics.oxfordjournals.org/content/early/2014/01/02/bioinformatics.btt759.abstract?sid=e62f3c2b-26dc-428b-ba24-99e92a277d77

Resource Type: Resource, software resource

Statistical software to estimate tumor purity, ploidy and absolute copy numbers from next generation sequencing data.

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Cite this (ABS filter, RRID:SCR_005328)

URL: http://updepla1srv1.epfl.ch/waszaks/absfilter/

Resource Type: Resource, software resource

R package for identification and removal of low-complexity sites in allele-specific analysis of ChIP-seq data.

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Cite this (ABSOLUTE, RRID:SCR_005198)

URL: http://www.broadinstitute.org/cancer/cga/absolute

Resource Type: Resource, software resource

Software to estimate purity / ploidy, and from that compute absolute copy-number and mutation multiplicities. When DNA is extracted from an admixed population of cancer and normal cells, the information on absolute copy number per cancer cell is lost in the mixing. The purpose of ABSOLUTE is to re-extract these data from the mixed DNA population. This process begins by generation of segmented copy number data, which is input to the ABSOLUTE algorithm together with pre-computed models of recurrent cancer karyotypes and, optionally, allelic fraction values for somatic point mutations. The output of ABSOLUTE then provides re-extracted information on the absolute cellular copy number of local DNA segments and, for point mutations, the number of mutated alleles.

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Cite this (AbundanceBin, RRID:SCR_004648)

URL: http://omics.informatics.indiana.edu/AbundanceBin/

Resource Type: Resource, software resource

An abundance-based software tool for binning metagenomic sequences, such that the reads classified in a bin belong to species of identical or very similar abundances. AbundanceBin also gives estimations of species abundances and their genome sizes -two important characteristic parameters for a microbial community.

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Cite this (ABySS-Explorer, RRID:SCR_010980)

URL: http://www.bcgsc.ca/platform/bioinfo/software/abyss-explorer

Resource Type: Resource, software resource

An interactive Java application that employs a novel graph-based representation to display a sequence assembly and associated meta data.

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Cite this (ABySS, RRID:SCR_010709)

URL: http://www.bcgsc.ca/platform/bioinfo/software/abyss

Resource Type: Resource, software resource

Software providing a de novo, parallel, paired-end sequence assembler that is designed for short reads.

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Cite this (Acacia, RRID:SCR_012896)

URL: http://sourceforge.net/projects/acaciaerrorcorr/?source=navbar

Resource Type: Resource, software resource

Accurate error-correction of amplicon pyrosequences.

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Cite this (ACCUSA2, RRID:SCR_000558)

URL: http://bbc.mdc-berlin.de/software

Resource Type: Resource, software resource

Multi-purpose SNV calling software enhanced by probabilistic integration of quality scores.

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Cite this (aCGH, RRID:SCR_013232)

URL: http://www.bioconductor.org/packages//2.10/bioc/html/aCGH.html

Resource Type: Resource, software resource

Software functions for reading aCGH data from image analysis output files and clone information files, creation of aCGH S3 objects for storing these data. Basic methods for accessing/replacing, subsetting, printing and plotting aCGH objects.

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Cite this (aCGH.Spline, RRID:SCR_002927)

URL: http://cran.r-project.org/src/contrib/Archive/aCGH.Spline/

Resource Type: Resource, software resource

An R package for array comparative genomic hybridization (aCGH) dye bias normalization.

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