:: DESCRIPTION
Ace_splitter is a java program that splits Ace files into separate files for each Contig.
::DEVELOPER
Coordinated Laboratory for Computational Genomics (CLCG)
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
ESTprep is a program that performs the preprocessing for cDNA reads. It is a part of ESTprep Suite which contains other utilities for producing different levels of output, including HTML formatted file. The program detects all the characterstics found within a sequence viz. restriction site, cloning vector, polyA tail, library tag, polyA signal. It also predicts whether the sequence should be used for further processing or should be rejected. If accepted the region within the sequence which is high quality is also identified.
::DEVELOPER
Coordinated Laboratory for Computational Genomics (CLCG)
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2003 Jul 22;19(11):1318-24.
ESTprep: preprocessing cDNA sequence reads.
Scheetz TE1, Trivedi N, Roberts CA, Kucaba T, Berger B, Robinson NL, Birkett CL, Gavin AJ, O’Leary B, Braun TA, Bonaldo MF, Robinson JP, Sheffield VC, Soares MB, Casavant TL.
:: DESCRIPTION
SNPack is a novel algorithm and file format for compressing and retrieving SNP data, specifically designed for large-scale association studies.
::DEVELOPER
SYSTEMS BIOLOGY AND BIOINFORMATICS GROUP
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2014 Jul 26. pii: btu495.
Compression and fast retrieval of SNP data.
Sambo F, Di Camillo B, Toffolo G, Cobelli C.
:: DESCRIPTION
HPG FastQ – Quality Control, Filtering and Preprocessing of Fastq file
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
DDF2GO uses high throughput differential detergent fractionation (DDF) proteomics data to assign experimentally based Gene Ontology (GO) cellular component (CC) annotations.
:: DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
“A high-throughput experiment-based method to identify subcellular localization,”
Lakshmi R Pillai, et al.
:: DESCRIPTION
EMBL2checklists converts EMBL- or GenBank-formatted flat files to submission-ready checklists (i.e., tab-separated spreadsheets) for submission to ENA via the interactive Webin submission system.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
Gruenstaeudl M, Hartmaring Y.
EMBL2checklists: A Python package to facilitate the user-friendly submission of plant and fungal DNA barcoding sequences to ENA.
PLoS One. 2019 Jan 10;14(1):e0210347. doi: 10.1371/journal.pone.0210347. PMID: 30629718; PMCID: PMC6328100.
:: DESCRIPTION
annonex2embl Converts an annotated DNA multi-sequence alignment (in NEXUS format) to an EMBL flatfile for submission to ENA via the Webin-CLI submission tool
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Gruenstaeudl M.
annonex2embl: automatic preparation of annotated DNA sequences for bulk submissions to ENA.
Bioinformatics. 2020 Jun 1;36(12):3841-3848. doi: 10.1093/bioinformatics/btaa209. PMID: 32227202.
:: DESCRIPTION
SPNConverter enables users to automatically convert networks for analysis with the SPN simulator from the standard systems biology markup language (SBML) to Graphml format.
::DEVELOPER
Group of Clinical Genomic Networks
:: SCREENSHOTS
n/a
:: REQUIREMENTS
:: MORE INFORMATION
Citation:
Bioinformatics. 2013 Oct 1;29(19):2507-8. doi: 10.1093/bioinformatics/btt421. Epub 2013 Aug 1.
SPNConverter: a new link between static and dynamic complex network analysis.
Dent JE1, Yang X, Nardini C.
:: DESCRIPTION
DNA-COMPACT is a software of DNA COMpression based on a pattern-aware contextual modeling technique.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
PLoS One. 2013 Nov 25;8(11):e80377. doi: 10.1371/journal.pone.0080377. eCollection 2013.
DNA-COMPACT: DNA COMpression based on a pattern-aware contextual modeling technique.
Li P1, Wang S, Kim J, Xiong H, Ohno-Machado L, Jiang X.
:: DESCRIPTION
phenochar is a software package for extracting phenotypic characters from BDML files.
::DEVELOPER
The Systems Science of Biological Dynamics (SSBD) Group
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
