LATEST NEWS
03.06.2016 | First version of the FastGT website is up
28.06.2016 | FastGT manuscript was submitted to the biorXiv
05.10.2016 | First 4 examples demonstrating command-line usage of FastGT were added to the UserManual section
11.04.2017 | A separate webpage was created to collect all existing and historical versions of k-mer databases
31.05.2017 | FastGT paper published in Scientific Research
03.06.2016 | First version of the FastGT website is up
28.06.2016 | FastGT manuscript was submitted to the biorXiv
05.10.2016 | First 4 examples demonstrating command-line usage of FastGT were added to the UserManual section
11.04.2017 | A separate webpage was created to collect all existing and historical versions of k-mer databases
31.05.2017 | FastGT paper published in Scientific Research
FastGT
- FastGT is a program package for whole-genome genotyping of genome variants directly from raw sequencing reads. It is written in C and runs in Linux.
FastGT uses a list of variant-specific k-mer pairs that are unique in human genome, counts the frequency of k-mers in sequencing data and predicts the genotype.
All this takes less than 1 hour on average low-cost Linux server.
- At least one database file with k-mers from this webpage
- Two main binaries of FastGT: gmer_counter and gmer_caller
- FASTQ file with Illumina reads
You need to download the following components:
If you use FastGT software, please cite Pajuste et al. Scientific Reports 7: 2537 (2017).
If you have any questions, suggestions or problems with the program, please let us know.
