ACE file format
Encyclopedia
The ACE file format is a specification for storing data about genomic contig
s.
The Center for Bioinformatics and Computation provides a
short description of the ACE format.
The original ACE format was developed for use with Consed
, a
program for viewing, editing, and finishing DNA
sequence assemblies
.
ACE files are generated by various assembly programs, including
Phrap
, CAP3, Newbler
, Arachne
, AMOS (sequence assembly) (more specifically Minimo) and Tigr Assembler v2.
Contig
A contig is a set of overlapping DNA segments that together represent a consensus region of DNA. In bottom-up sequencing projects, a contig refers to overlapping sequence data ; in top-down sequencing projects, contig refers to the overlapping clones that form a physical map of the genome that is...
s.
The Center for Bioinformatics and Computation provides a
short description of the ACE format.
The original ACE format was developed for use with Consed
Consed
Consed is a program for viewing, editing, and finishing DNA sequence assemblies. Originally developed for sequence assemblies created with phrap, recent versions also support other sequence assembly programs like Newbler.- History :...
, a
program for viewing, editing, and finishing DNA
DNA
Deoxyribonucleic acid is a nucleic acid that contains the genetic instructions used in the development and functioning of all known living organisms . The DNA segments that carry this genetic information are called genes, but other DNA sequences have structural purposes, or are involved in...
sequence assemblies
Sequence assembly
In bioinformatics, sequence assembly refers to aligning and merging fragments of a much longer DNA sequence in order to reconstruct the original sequence. This is needed as DNA sequencing technology cannot read whole genomes in one go, but rather reads small pieces of between 20 and 1000 bases,...
.
ACE files are generated by various assembly programs, including
Phrap
Phrap
Phrap is a widely used program for DNA sequence assembly. It is part of the Phred-Phrap-Consed package.- History :Phrap was originally developed by Prof. Phil Green for the assembly of cosmids in large-scale cosmid shotgun sequencing within the Human Genome Project...
, CAP3, Newbler
Newbler
Newbler is a software package for de novo DNA sequence assembly. It is designed specifically for assembling sequence data generated by the 454 GS-series of pyrosequencing platforms sold by 454 Life Sciences, a Roche Diagnostics company.-Usage:...
, Arachne
Arachne
In Greco-Roman mythology, Arachne was a great mortal weaver who boasted that her skill was greater than that of Minerva, the Latin parallel of Pallas Athena, goddess of wisdom and crafts. Arachne refused to acknowledge that her knowledge came, in part at least, from the goddess. The offended...
, AMOS (sequence assembly) (more specifically Minimo) and Tigr Assembler v2.