Version: r1206
Email: browning@uw.edu



IBDseq is a software program for detecting segments of identity-by-descent (IBD) and homozygosity-by-descent (HBD) in unphased genetic sequence data. IBDseq can analyze large data sets with thousands of individuals, and it can analyze data with multi-allelic markers.

The IBD segments detected by IBDseq can be used by the SEQERR program to to estimate genotype error rates at low frequency variants in sequence data.

If you use this preview version in a published analysis, please cite the program version and the following article:

B L Browning and S R Browning (2013) Detecting identity by descent and estimating genotype error rates in sequence data. The American Journal of Human Genetics 93(5):840-851. doi:10.1016/j.ajhg.2013.09.014

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Download IBDseq

The IBDseq program is licensed under the Apache License, Version 2.0 (the License). You may not use the IBDseq program except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0.

Some source files in the net.sf.samtools package are licensed under the MIT License. See the source files for additional license information.

The IBDseq program is distributed on an "AS IS" BASIS WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.

ibdseq.r1206.jar java executable file
ibdseq.07Nov13.pdf IBDseq documentation
ibdseq.r1206.zip source code

The following resources are also available:

Beagle Utilities a suite of utility programs
conform-gt a program for making variants in a target VCF file consistent with a reference VCF file.

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Copyright: 2013 Brian L. Browning
Last updated: 19 Dec 2013.