Name: Kevin Amses
Type: User
Company: Perelman School of Medicine, University of Pennsylvania
Bio: I'm a biologist who uses computation and large biological sequence datasets to study fungal evolution. He/him
Location: Philadelphia, PA
Kevin Amses's Projects
Repository of scripts and shared data for chytrid phylogenomics analyses
Lightweight yet powerful formatter plugin for Neovim
Pipeline for detecting horizontal gene transfer using alien index scores in line with Alexander et al. 2016 PNAS.
Eukaryotic Genome Annotation Pipeline
🗡️ Warm color scheme for Neovim and beyond
An application for requesting metadata from OrthoDB.
Parse a table of protein ortholog names and get their corresponding nucleotide sequences.
Beautiful collection of Polybar themes
Takes a list of protein header and finds their origination contigs via a GFF3 file.
Some python exercises for those learning python.
Open-source keyboard firmware for Atmel AVR and Arm USB families
Some useful R classes and functions that were useful to my research.
Repo for bulk RNAseq analysis wrapping DESeq2 and using knitr to render reports.
Notes and scripts on how to run codeml for dn/ds analyses
This library provides implementations of many algorithms and data structures that are useful for bioinformatics. All provided implementations are rigorously tested via continuous integration.
Upstream processing for SCC
SCGid, a consensus approach to contig filtering and genome prediction from single-cell sequencing libraries
This crate simply prepares protein FASTAs and lineage information for incorporation into swissprot-style databases used by SCGid.