SPLITREAD
is a
novel method
for detecting
INDELs (small insertions and deletion with size less than 50bp) as well
as large deletions
deletions
that are within the
coding regions from the exome sequencing data. It also can be applied
to the whole genome sequencing data.
2011-10-13: SPLITREAD version 0.1 release:
- Initial release of SPLITREAD.
- This version uses mrsFAST for mapping. It predicts all
deletions and small insertions and output a bed file with support
value. It mostly uses bash scripts for processing the intermediate
files. An update with the BWA version and a better output format will
be released soon.
Publications
Other
publications
that
use
SPLITREAD
Related Projects
mrFAST:
Our
default
Illumina
read
mapper
that
finds
both indels and mismatches and
performs iterative search to increase mapping sensitivity. Specifically
designed for copy number variation and structural variation analysis.
mrsFAST: Our alternative
Illumina read mapper that finds only mismatches to increase mapping
speed. Also supports bisulfite mapping.
mrCaNaVaR:
Copy
number
caller
that
analyzes
the
whole-genome
next-generation
sequence
mapping
read
depth
to
discover large segmental
duplications
and deletions.
drFAST: Read mapper
for di-base color-space reads generated with the SOLiD platform.
VariationHunter:
Structural variation calling algorithm using read pair
mapping information including suboptimal alignments.
NovelSeq: Novel
sequence insertion discovery framework.
Links
