Sequence
Read Archive format (SRA)
SRA
is the native archive format for the INSDC SRAs. Naturally, submitting data in
this form gives the most complete rendering of the data, is fastest to
load, and will suffer the fewest load failures and rework. Tools for
preparing SRA submissions are being developed as well as the capability to
accept them as part of a deposit.
Standard
Flowgram Format (SFF)
SFF
was developed by 454 and NCBI to encode 454 flowgrams for deposit in the Trace
Archive. They have also worked well as an input file format for
the SRA.
Sequence
Read Format (SRF)
SRF
is a community standard developed by James Bonfield and Asim Siddiqui. It has
been used to contain large amounts of Illumina and SOLiD data
for deposit and have served as a backing storage format. Several
implementations exist. Io_lib based implementations maintained as part of the
Staden package, as well as the AB implementation for SOLiD, have been
qualified and successfully used for submission. An additional
implementation based on Illumina changes to io_lib exists but has not yet been qualified. A
new implementation from Rob Davies at Sanger Institute has been introduced but
not
yet qualified. The SRA Archives are working to qualify the various
implementations of SRF