index.md

layout	permalink	header	excerpt	intro	featr_code	featr_texts	featr_suppl	separ_code	separ_texts	separ_suppl
splash	/	overlay_color overlay_image #5e616c /assets/images/mm-home-page-feature.jpg	Computational Biologist. Tenure Track Fellow in Health at the University of Liverpool.	excerpt Below you will find links to other pages with code, documentation, and technical notes for bioinformatics and computational evolutionary biology software.	image_path alt title excerpt url btn_class btn_label /assets/images/logo_tatajuba.png tatajuba Tatajuba Identification and classification of homopolymeric tracts from reads https://github.com/leomrtns/tatajuba btn--primary btn--small source code on github image_path alt title excerpt url btn_class btn_label /assets/images/logo_uvaia.png uvaia Uvaia Reference-based alignment and search against aligned database https://github.com/leomrtns/uvaia btn--primary btn--small source code on github image_path alt title excerpt url btn_class btn_label /assets/images/logo_superdistance.png super_distance Super Distance Supertree estimation from gene family trees, using matrix representation with distances https://github.com/leomrtns/super_distance btn--primary btn--small source code on github image_path alt title excerpt url btn_class btn_label /assets/images/logo_peroba.png peroba Peroba Phylogenetic exploration of SARS-CoV-2 sequences https://github.com/leomrtns/peroba btn--primary btn--small source code on github image_path alt title excerpt url btn_class btn_label /assets/images/logo_guenomu.png guenomu Guenomu Hierarchical Bayesian species tree estimation from multi-gene family data https://bitbucket.org/leomrtns/guenomu/ btn--primary btn--small source code on bitbucket image_path alt title excerpt url btn_class btn_label /assets/images/logo_genefam.png genefam_dist Genefam-dist Signature inference of gene family trees from anchoring species trees. https://github.com/leomrtns/genefam-dist btn--primary btn--small source code on github image_path alt title excerpt url btn_class btn_label /assets/images/logo_specimage.png specimage SpecImage Python module to work with hyperspectral imaging data. https://github.com/leomrtns/specimage btn--primary btn--small source code on github image_path alt title excerpt url btn_class btn_label /assets/images/logo_biomcmc.png biomcmclib biomcmc-lib library C library with low level functions for phylogenetic analyses https://github.com/leomrtns/biomcmc-lib btn--primary btn--small source code on github image_path alt title excerpt url btn_class btn_label /assets/images/logo_biomc2.png recomb-biomc2 Recomb-biomc2 Hiearchical Bayesian Model for Viral Phylogenetic Recombination https://github.com/leomrtns/recomb-biomc2 btn--primary btn--small source code on github image_path alt title excerpt url btn_class btn_label /assets/images/logo_cumaru.png cumaru Cumaru (Experimental) multiple sequence alignment based on kalign3 https://github.com/leomrtns/cumaru btn--primary btn--small source code on github image_path alt title excerpt url btn_class btn_label /assets/images/logo_curupixa.png curupixa Curupixa (Experimental) thread-safe API-aware C library to supercede biomcmc-lib someday https://github.com/leomrtns/curupixa btn--primary btn--small source code on github	image_path alt title excerpt url btn_class btn_label /assets/images/logo_araiguma.png notebooks Binfie notes Blog with technical notes on bioinformatics algorithms and implementations https://leomrtns.github.io/jupyterblog btn--info btn--small Notebooks webpage image_path alt title excerpt url btn_class btn_label /assets/images/logo_biomcmc.png biomcmc-libdocs biomcmc-lib API Doxygen documentation for employing biomcmc-lib source code https://leomrtns.github.io/doxygen-biomcmclib btn--info btn--small API documentation page image_path alt title excerpt url btn_class btn_label /assets/images/logo_biomcmc_blog.png biomcmc-blog bioMCMC blog Old blog with phylogenetics observations and new papers http://biomcmc.blogspot.com btn--info btn--small read blog posts	image_path alt title excerpt url btn_class btn_label /assets/images/logo_salmobiofilm.png Salmonella biofilm Salmonella Biofilm Jupyter notebooks with analyses of experimental evolution of Salmonella biofilms https://github.com/quadram-institute-bioscience/2020.Salmonella_biofilm btn--warning btn--small github repository image_path alt title excerpt url btn_class btn_label /assets/images/logo_70s.png long-read rRNA phylogenetics rRNA phylogenetics Analysis of the phylogenetic resolution of the rRNA operon https://github.com/quadram-institute-bioscience/70S-resolution btn--warning btn--small github repository image_path alt title excerpt url btn_class btn_label /assets/images/logo_ucatest.png UCA test bias Tree homology tests Critical evaluation of tree-based homology inference https://bitbucket.org/leomrtns/uca-test-bias btn--warning btn--small bitbucket repository	image_path excerpt /assets/images/h_separator.png <b class="notice--primary">Software and code</b>	image_path excerpt /assets/images/h_separator.png <b class="notice--info">Documentation and Texts</b>	image_path excerpt /assets/images/h_separator.png <b class="notice--warning">Supplementary analyses for manuscripts</b>

{% include feature_row id="intro" type="center" %} {% include feature_row id="separ_code" type="center" %} {% include feature_row id="featr_code" %} {% include feature_row id="separ_suppl" type="center" %} {% include feature_row id="featr_suppl" %} {% include feature_row id="separ_texts" type="center" %} {% include feature_row id="featr_texts" %} Mastodon