Version 1.1.0

• Switched to semantic versioning.
• collect_results.py output is now more informative.
• align_reads.nf can now be run using a list of input files in the form of a csv. This version is called aligned_reads_input_list.nf
• Ground work for calculating substitution probability, which can be used to derive r/m.
• Updated dependencies (docker file and conda environment.yaml).
• Outlier SNP entries (based on top n% of depth) can now be removed in rho_est and theta_est and related input_list nextflow files.
• align_all_est.nf and all_esf.nf updated to reflected latest changes.