Releases available in Releases
Alternatively, install from the repository via:
git clone https://github.com/ACEnglish/tdb.git
cd tdb/
python3 -m pip install . Convert a tdb compatible VCF and run a query with:
tdb create -o output.tdb input.vcf.gz
tdb query allele_cnts output.tdb
Merge samples with:
tdb merge --output merged.tdb --mem 20 --threads 4 output1.tdb output2.tdb
Recommended 5-10GB of memory per-thread
Merge more samples into a tdb with:
tdb merge --into merged.tdb output3.tdb output4.tdb ...
For merging ≥10 tdbs, use:
tdb bigmerge -o merged.tdb results/samples*.tdb
See the wiki for details on what tdb is or jump straight into making your own custom tdb queries with notebooks/Introduction.ipynb.