Search results

• MitoPhAST
  ...tics bottleneck in preparing and utilising such data for phylogenetic data analysis. We present, MitoPhAST, an automated tool that: ...ncorporates nuclear gene sequences (if supplied by user) into phylogenetic analysis.
  3 KB (382 words) - 14:27, 23 April 2020
• EQTLA
  ...orming both cis- and trans-eQTL analysis given a set of raw genetic marker data and expression values.
  2 KB (269 words) - 18:52, 12 August 2022
• QIIME2
  ...from representative sequences of OTUs, and through downstream statistical analysis, visualization, and production of publication-quality graphics. QIIME has b
  3 KB (435 words) - 15:15, 19 August 2022
• EEGLAB
  event-related EEG, MEG and other electrophysiological data using independent component analysis (ICA), time/frequency analysis, and other methods
  2 KB (271 words) - 14:56, 15 August 2022
• Gblocks
  prior to phylogenetic analysis. Gblocks selects blocks in a similar way as the final alignment more suitable for phylogenetic analysis. Gblocks outputs
  3 KB (441 words) - 13:56, 13 June 2022
• Rnalysis
  ...and data visualization through clustering analysis and gene-set enrichment analysis. RNAlysis: analyze your RNA sequencing data without writing a single line of code. BMC Biology, 21, 74.
  5 KB (648 words) - 16:12, 25 April 2023
• GrADS
  ...two data models for handling gridded and station data. GrADS supports many data file formats, including binary (stream or sequential), GRIB2, NetCDF, and H
  3 KB (334 words) - 20:26, 24 August 2022
• TRANSIT
  ...provides an easy to use graphical interface and access to three different analysis methods that allow the user to determine essentiality in a single condition
  2 KB (279 words) - 21:29, 6 December 2019
• EMBOSS
  ...integrates a range of currently available packages and tools for sequence analysis into a seamless whole. EMBOSS breaks the historical trend towards commercia
  3 KB (372 words) - 15:01, 15 August 2022
• FAST
  ...astA format). FAST tools expose the power of Perl and BioPerl for sequence analysis to non-programmers in an easy-to-learn command-line paradigm. .../articles/10.3389/fgene.2015.00172/full Lawrence et al. (2015). FAST: FAST Analysis of Sequences Toolbox in Frontiers in Genetics, and Stajich et al. (2002)]
  3 KB (358 words) - 21:21, 6 December 2019
• Pomoxis
  Pomoxis started life as a set of services to perform analysis of squiggles as draft assemblies. Many of these tools are used by the research data analysis
  2 KB (285 words) - 18:48, 21 August 2022
• Biolite
  ...cks provenance, and provides lightweight tools for building out customized analysis pipelines. * A 'catalog' database for pairing metadata with and organizing NGS data files.
  3 KB (362 words) - 12:54, 15 August 2022
• RepeatExplorer
  uses high-throughput genome sequencing data as an input and performs graph-based clustering analysis of sequence read similarities to identify
  2 KB (278 words) - 21:44, 21 August 2022
• VDJtools
  ...mprehensive analysis framework for T-cell and B-cell repertoire sequencing data. ...le?id=10.1371/journal.pcbi.1004503 Shugay M et al. VDJtools: Unifying Post-analysis of T Cell Receptor Repertoires. PLoS Comp Biol 2015; 11(11):e1004503-e10045
  2 KB (280 words) - 21:29, 6 December 2019
• TREEPUZZLE
  ...es. The corresponding parameters (except for GTR) can be inferred from the data set. ...n, and A. von Haeseler (2002) TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics. 18:502-504.]
  4 KB (450 words) - 19:31, 10 June 2022
• CellRanger-ARC
  ...erential analysis, and feature linkage between peaks and genes that aid in data interpretation.
  3 KB (288 words) - 18:24, 12 August 2022
• CGATools
  ...urce project to provide tools for downstream analysis of Complete Genomics data. The focus is to provide command line utilities, but a C++ API is available
  2 KB (291 words) - 13:26, 15 August 2022
• Circos
  ...is a software package for visualizing data and information. It visualizes data in a circular layout — this makes Circos ideal for exploring relationship ...fographics and illustrations with a high data-to-ink ratio, richly layered data and pleasant symmetries. You have fine control each element in the figure t
  3 KB (409 words) - 13:35, 15 August 2022
• Bactopia
  ...ete analysis of bacterial genomes. The goal of Bactopia is to process your data with a broad set of tools, so that you can get to the fun part of analyses Petit III RA, Read TD, Bactopia: a flexible pipeline for complete analysis of bacterial genomes. mSystems. 5 (2020), https://doi.org/10.1128/mSystems.
  2 KB (292 words) - 21:38, 10 January 2023
• Rvtests
  ...Rare Variant tests, is a flexible software package for genetic association analysis for sequence datasets. ...nd Comprehensive Tool for Rare Variant Association Analysis Using Sequence Data. Bioinformatics 2016 32: 1423-1426.]
  3 KB (293 words) - 21:59, 21 August 2022

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