:: DESCRIPTION
imageHTS is an R package dedicated to the analysis of high-throughput microscopy-based screens. The package provides a modular and extensible framework to segment cells, extract quantitative cell features, predict cell types and browse screen data through web interfaces.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
NGSANE (Next Generation Sequencing ANalysis for Enterprises ) is a framework for advanced production informatics of Next Generation Sequencing libraries.
::DEVELOPER
CSIRO Transformational Bioinformatics
:: SCREENSHOTS
N/a
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2014 May 15;30(10):1471-2. doi: 10.1093/bioinformatics/btu036. Epub 2014 Jan 26.
NGSANE: a lightweight production informatics framework for high-throughput data analysis.
Buske FA1, French HJ, Smith MA, Clark SJ, Bauer DC.
:: DESCRIPTION
PLAN (Personal BLAST Navigator) is a versatile web platform that helps users to carry out various personalized pre- and post-BLAST tasks, including: (1) query and target sequence database management, (2) automated high-throughput BLAST searching, (3) indexing and searching of results, (4) filtering results online, (5) managing results of personal interest in favorite categories, (6) automated sequence annotation (such as NCBI NR and ontology-based annotation). PLAN integrates, by default, the Decypher hardware-based BLAST solution provided by Active Motif Inc. with a greatly improved efficiency over conventional BLAST software. BLAST results are visualized by spreadsheets and graphs and are full-text searchable. BLAST results and sequence annotations can be exported, in part or in full, in various formats including Microsoft Excel and FASTA. Sequences and BLAST results are organized in projects, the data publication levels of which are controlled by the registered project owners. In addition, all analytical functions are provided to public users without registration.
::DEVELOPER
The Zhao Bioinformatics Laboratory
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
He, J., Dai, X. and Zhao, X. (2007).
PLAN: A web platform for automating high-throughput BLAST searches and for managing and mining results.
BMC Bioninformatics 8:53.
:: DESCRIPTION
FastQC aims to provide a simple way to do some quality control checks on raw sequence data coming from high throughput sequencing pipelines. It provides a modular set of analyses which you can use to give a quick impression of whether your data has any problems of which you should be aware before doing any further analysis.
:: DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
Vidjil processes high-throughput sequencing data to extract V(D)J junctions and gather them into clones. This analysis is based on a seed heuristics and is fast and scalable, as, in the first phase, no alignment is performed with database germline sequences.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Mathieu Giraud, Mikaël Salson, Marc Duez, Céline Villenet, Sabine Quief, Aurélie Caillault, Nathalie Grardel, Christophe Roumier, Claude Preudhomme, Martin Figeac,
Fast multiclonal clusterization of V(D)J recombinations from high-throughput sequencing,
BMC Genomics, 15:409, doi:10.1186/1471-2164-15-409
:: DESCRIPTION
BioProfiling.de is a free web portal for analyses and interpretation of biological data of various natures.
::DEVELOPER
:: SCREENSHOTS
N/a
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation
Nucleic Acids Res. 2011 Jul;39(Web Server issue):W323-7. doi: 10.1093/nar/gkr372.
BioProfiling.de: analytical web portal for high-throughput cell biology.
Antonov AV.
:: DESCRIPTION
RootArray is an imaging pipeline that includes automated tracking of growing roots, automated image acquisition and gene expression quantification.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
ProteomeScout is a database of proteins and post-translational modifications.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Naegle KM, Gymrek M, Joughin BA, Wagner JP, Welsch RE, Yaffe MB, Lauffenburger DA, White FM.
ProteomeScout: A web resource for analysis of high-throughput post-translational proteomic studies.
Molecular and Cellular Proteomics, 2010.
Mol Cell Proteomics. 2010 Nov;9(11):2558-70. doi: 10.1074/mcp.M110.001206.
PTMScout, a Web resource for analysis of high throughput post-translational proteomics studies.
Naegle KM, Gymrek M, Joughin BA, Wagner JP, Welsch RE, Yaffe MB, Lauffenburger DA, White FM.
:: DESCRIPTION
Arioc is a set of computer programs that carry out the alignment of short DNA sequences to a comparatively large reference sequence or genome.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Arioc: high-throughput read alignment with GPU-accelerated exploration of the seed-and-extend search space.
Wilton R, Budavari T, Langmead B, Wheelan SJ, Salzberg SL, Szalay AS.
PeerJ. 2015 Mar 3;3:e808. doi: 10.7717/peerj.808. eCollection 2015.
:: DESCRIPTION
HiTRACE is a suite of robust and efficient analysis software to facilitate the analysis of large-scale high-throughput CE data.It has been intensively used for quantitating data for RNA and DNA based on the mutate-and-map methodology, chromatin footprinting, and other high-throughput structure mapping techniques.
HiTRACE-Web is an online version of HiTRACE that presents both standard features previously available only in the MATLAB environment as well as additional features such as automated band annotation and flexible adjustment of annotations, all via an integrative, user-friendly, and interactive environment.
::DEVELOPER
Das Lab , Seoul National University.
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
HiTRACE-Web: an online tool for robust analysis of high-throughput capillary electrophoresis.
Kim H, Cordero P, Das R, Yoon S.
Nucleic Acids Res. 2013 Jul;41(Web Server issue):W492-8. doi: 10.1093/nar/gkt501.
HiTRACE: high-throughput robust analysis for capillary electrophoresis.
Yoon S, Kim J, Hum J, Kim H, Park S, Kladwang W, Das R.
Bioinformatics. 2011 Jul 1;27(13):1798-805. doi: 10.1093/bioinformatics/btr277
