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1kg.times-tails.fmt.txt
README.md
afci.lua
chunk-gap-plot.py
compare.toml
custom.lua
exac.times-tails.txt
example.conf
example.lua
example.sh
gap-plot.py
gaps.sh
gem.conf
genotypes-1kg.sh
par-times.txt
parallelization-figure.py
parallelization-run.sh
timing-plot.py
timing.py
vcfsort.sh

README.md

Timing table (downloads data for other plots too)

python timing.py # writes timing.txt which is the table.

Figure 4. (number of cores vs speedup for ExAC and 1KG)

bash parallelization-run.sh python parallelization-figure.py

Figure 5A. (gap-size vs chunk-size)

python chunk-gap-plot.py 1kg.times-tails.fmt.txt exac.times-tails.txt

Supplemental File 1 is gem.conf

Supplemental Table 1 is par-times.txt

Supplemental File 2 is afci.lua