ChIP-Convert is a hub for data input, format conversion and data export to other applications.
It imports and converts external data to compressed SGA
or other common formats such as BED
, and FPS
Alternatively, ChIP-Convert can be used to export data from the MGA repository in other formats such as BED
Format specs are listed below:
BED format B
ata has been designed at UCSC for displaying data traks in the genome browser.
GFF format G
ormat is a format for describing genes and other features associated with DNA, RNA and protein sequences.
BAM format B
ap is derived from the SAM
format which is a geneirc alignment format for storing read alignments against reference sequences, supporting short and long reads (up to 128Mbp) produced by different sequencing platforms.
ELAND format E
lignment of N
atabases is the export format (tab-delimited file, output of ELAND aligner) of the Illumina sequencing data processing pipeline.
FPS format F
et is a format used by the Signal Search Analysis (SSA) programs for representing a set of DNA or RNA sequences which occur at a constrained distance from a functional site, for instance a transcription initiation site or a transcription factor binding site.
The Conversion tool also provides SGA-to-BED
conversion. File compression at both input and output in gzip format is also supported.