AmpliCI v2.2

AmpliCI now is available on Bioconda. You can install AmpliCI with conda install.

conda install bioconda::amplici

Then you can run AmpliCI under your current conda environment.

run_AmpliCI -h 

Other important updates on AmpliCI repository.

• Bug fixed in beta-binomial distribution with no change to the results.
• Bug fixed for DAUMI (for sequences with UMI). Now recommend using --nJC69 option to get the initial haplotypes (for sequences with UMIs ONLY), with improved performance on simulation datasets.
• Edits on CMakeLists.txt to make the package built under the conda build system.

AmpliCI v2.1.999

Preparing for the new release to Bioconda.

AmpliCI v2.1

AmpliCI v2.1: Improve the quality of codes and eliminate the dependence on the R and Rmath library.

Add subcommands:
run_AmpliCI cluster
run_AmpliCI error
run_AmpliCI assignment
run_AmpliCI daumi
Use option -h for more information.

AmpliCI v2.0

AmpliCI v2.0: Include a new module for clustering UMI-tagged sequences.
See the page for how to usee the new module.

v1.0.2

1. Add a C library for use in other applications.
2. Add a new option -nJC69 for clustering unrelated biological sequences.
3. It now can output haplotypes with variable length. But I need further test AmpliCI on datasets with variable length reads.

v1.0: Initial release

To reproduce published results