ISCA specifications


Unique identifier OMICS_28792
Alternative name Inheritance State Consistency Analysis
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Version 0.1.9
Stability Stable
Maintained No




No version available

Additional information

A previous version can be downloaded at

ISCA citations


Genomic architecture of inflammatory bowel disease in five families with multiple affected individuals

Hum Genome Var
PMCID: 4785573
PMID: 27081563
DOI: 10.1038/hgv.2015.60

[…] abilities for shared segments are 0.07 and 0.01 in family 1 and 2, respectively, suggesting that no identical-by-descent regions are expected other than causative segments in these families. However, Inheritance State Consistency Analysis on the sequence data identified a 2.6 Mb (GRCh37 chr6: 80,111,322–82,671,825) and a 4.5 Mb (GRCh37 chr6: 43,216,439–47,754,537) shared segment in family 1, spann […]


Relationship Estimation from Whole Genome Sequence Data

PLoS Genet
PMCID: 3907355
PMID: 24497848
DOI: 10.1371/journal.pgen.1004144

[…] ta, we first inferred IBD segments between each pair of individuals with three different methods: Genetic Error-tolerant Regional Matching with Linear-time Extension (GERMLINE), Beagle's fastIBD, and Inheritance State Consistency Analysis (ISCA) –. We then applied ERSA separately to each of the three resulting IBD-segment datasets. For our initial analysis of control genomes from putatively unrela […]

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