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afmmodels

Structure models of actin filament models of rabbit and Plasmodium falciparum

allosteric_mixtures

Allosteric effects in mixtures

armi

analytical residual Mutual Information

bioconvert

Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.

bioinformatics_lectures

deepvariant

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

ga_toplot

Genetic Algorithm running on topology files

ipython

Official repository for IPython itself. Other repos in the IPython organization contain things like the website, documentation builds, etc.

jkleinj.github.io

web page

jkleinj.papers

Publications

jkleinj.talks

Scientific Talks

latex_poster_ismb_2016_orlando

Poster prepared for the ISMB 2016 conference in Orlando

latex_poster_ismb_2017_prague

Poster prepared for the ISMB 2017 conference in Prague.

make_parallel

Demo for parallel execution of GNU Make

optics

Clustering by single-linkage point ordering.

pandoc-letter

Pandoc template for writing letters in markdown

physicalconstants

Physical constants as defined in the GSL library; for conversion into an R package

prepromali

Preprocess multiple sequence alignments to compute co-evolution

reactomequery

regression

R demo scripts for linear regression and ANOVA

rnaseq-blacy_pub

Data underlying Figure 5b of paper

rstan

RStan code

samtools

Tools (written in C using htslib) for manipulating next-generation sequencing data

scrna-seq_forum

scRNA-Seq forum at the Francis Crick Institute

seqorrmap

Maps sequence-derived residue-pair correlations onto a corresponding PDB structure

symmetry

:ferris_wheel: Detect, analyze, and visualize protein symmetry

toplot

Encoding of protein structure into topological strings

yun

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