MADAP specifications

Information


Unique identifier OMICS_15158
Name MADAP
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data An uploaded file containing a set of tabulator-separated numbers representing for instance positions on a chromosome.
Input format GFF
Operating system Unix/Linux
Programming languages C++
License GNU General Public License version 2.0
Computer skills Advanced
Version 2.0
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Christoph Schmid

Information


Unique identifier OMICS_15158
Name MADAP
Interface Web user interface
Restrictions to use None
Input data Takes as input an uploaded file containing a set of tabulator-separated numbers representing for instance positions on a chromosome.
Input format GFF
License GNU General Public License version 2.0
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Christoph Schmid

Publication for MADAP

MADAP citation

library_books

EPD in its twentieth year: towards complete promoter coverage of selected model organisms

2005
Nucleic Acids Res
PMCID: 1347508
PMID: 16381980
DOI: 10.1093/nar/gkj146

[…] sing pipeline for preliminary entries. To illustrate this principle, let's consider the in silico primer extension method for inferring TSSs. Our currently implemented procedure relies on the program madap () for identifying clusters of cDNA 5′ ends mapped to the genome. For standard EPD entries, we require at least 10 cDNAs per cluster. For preliminary entries, we could simply lower the threshold […]

MADAP institution(s)
Swiss Institute of Bioinformatics (SIB), Lausanne, Switzerland; National Centre of Competence in Research (NCCR) Molecular Oncology, Swiss Institute of Experimental Cancer Research (ISREC), Epalinges, Switzerland; Swiss Institute of Experimental Cancer Research (ISREC), Epalinges, Switzerland

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