Score calculation in HaploGrep

In this blog post we show how Haplogrep’s default measure (so called Kulczynski measure) works on a concrete example. (Note: this blog post has been updated after receiving a correction from Chris Simpson, Thanks!) So let’s say this is your input sample in hsd format: test 16024-16569;1-576; ? 73G 263G 285T 315.1C 455.1T 523G 524T … 

 

HaploGrep on GitHub

We’re happy to announce that the command-line version of HaploGrep is finally on GitHub. Due to increasing user requests over the last months, we also started a Google User Group to learn about your needs. Feel free to contact us if you have any questions. Happy Haplogrouping! HaploGrep on GitHub

 

HaploGrep’s RestAPI now available!

Hi all, due to many requests we are happy to announce┬áthat we provide Haplogrep’s┬áREST API to the public! This will allow everyone to determine haplogroups in a very convenient way. In the following snippets we show how a simple call works (a) from the UNIX command line using curl and (b) from Java. If you … 

 

NGS, HaploGrep and Hadoop MapReduce

Many of our HaploGrep users are interested in analysing data within automated pipelines. To support users with a scalable and standardized service, we are happy to present you our newest project, called mtDNA-Server. mtDNA-Server provides a free service for the complete workflow of NGS mtDNA projects. It includes the alignment of FASTQ SE/PE data based …