cloneRate

Estimate Growth Rates from Phylogenetic Trees

CRAN Package

Quickly estimate the net growth rate of a population or clone whose growth can be approximated by a birth-death branching process. Input should be phylogenetic tree(s) of clone(s) with edge lengths corresponding to either time or mutations. Based on coalescent results in Johnson et al. (2023) doi:10.1093/bioinformatics/btad561. Simulation techniques as well as growth rate methods build on prior work from Lambert A. (2018) doi:10.1016/j.tpb.2018.04.005 and Stadler T. (2009) doi:10.1016/j.jtbi.2009.07.018.


Documentation


Team


Insights

Last 30 days

This package has been downloaded 197 times in the last 30 days. Enough downloads to make a small wave in the niche community. The curiosity is spreading! The following heatmap shows the distribution of downloads per day. Yesterday, it was downloaded 6 times.

Sun
Mon
Tue
Wed
Thu
Fri
Sat
0 downloadsMar 2, 2025
9 downloadsMar 3, 2025
9 downloadsMar 4, 2025
6 downloadsMar 5, 2025
3 downloadsMar 6, 2025
9 downloadsMar 7, 2025
3 downloadsMar 8, 2025
3 downloadsMar 9, 2025
5 downloadsMar 10, 2025
9 downloadsMar 11, 2025
5 downloadsMar 12, 2025
4 downloadsMar 13, 2025
3 downloadsMar 14, 2025
10 downloadsMar 15, 2025
5 downloadsMar 16, 2025
11 downloadsMar 17, 2025
7 downloadsMar 18, 2025
7 downloadsMar 19, 2025
14 downloadsMar 20, 2025
6 downloadsMar 21, 2025
11 downloadsMar 22, 2025
6 downloadsMar 23, 2025
6 downloadsMar 24, 2025
9 downloadsMar 25, 2025
7 downloadsMar 26, 2025
9 downloadsMar 27, 2025
3 downloadsMar 28, 2025
7 downloadsMar 29, 2025
3 downloadsMar 30, 2025
2 downloadsMar 31, 2025
6 downloadsApr 1, 2025
0 downloadsApr 2, 2025
0 downloadsApr 3, 2025
0 downloadsApr 4, 2025
0 downloadsApr 5, 2025
2
14

The following line graph shows the downloads per day. You can hover over the graph to see the exact number of downloads per day.

Last 365 days

This package has been downloaded 2,341 times in the last 365 days. Now we’re talking! This work is officially 'heard of in academic circles', just like those wild research papers on synthetic bananas. The day with the most downloads was Jul 23, 2024 with 25 downloads.

The following line graph shows the downloads per day. You can hover over the graph to see the exact number of downloads per day.

Data provided by CRAN


Binaries


Dependencies

  • Imports5 packages
  • Suggests8 packages
  • Linking To6 packages