eLife Sciences

Ageing2019

Data processing, pipelines and analytical code for the thymus ageing manuscript

EVcouplings

Evolutionary couplings from protein and RNA sequence alignments

flu-forecasting

Integrating genotypes and phenotypes improves long-term forecasts of seasonal influenza A/H3N2 evolution

FreelyExpandingTissues

Analysis scripts for research on freely expanding epithelia

VKOR

Analysis pipeline for manuscript "Multiplexed measurement of variant abundance and activity reveals VKOR topology, active site and human variant impact."

2019-11-allelic_bias_in_fire_ant_supergene

2020_Sorn_Elife

3-step-Map-Aligment-Model-2020

arbitration

Code supporting the paper for "Neural Arbitration between Social and Individual Learning Systems"

BarrelEmerge

Emergence of whisker barrels with modified Karbowski-Ermentrout-like axon branching population model

bond_length_analysis

cfNA

coexpression-transEQTL

Analysis source code for co-expression trans-eQTL analysis

Colnaghi-Lane-Pomiankowski-2020

CyclicDominance

isecc

Icosahedral Subparticle Extraction & Correlated Classification

KrShadowEnhancerCode

Code for analyzing transcriptional traces and generating figures in Waymack, et al.,

Leave-one-out-LOESS

MemoryPreparationSubspace

ontogenyofhunting_pub

Code associated with the article "Learning steers the ontogeny of an efficient hunting sequence in zebrafish larva."

Priming-Skin-to-Regenerate-by-Inducing-Lef1-Expression-in-Fibroblasts-

pub-2020elife

Fiji macros associated with processing data from Chen et al., eLife 2020.

RSVHouseholdModel

Julia 0.6 code for running the RSV Household transmission model (see https://www.biorxiv.org/content/10.1101/569335v1.abstract for preprint).

sc_binary_splicing

Dataset analysis, simulations and figures from single cell splicing paper

SeasonalEcosystem

Code and data for the article "Nutrient levels and trade-offs control diversity in a model seasonal ecosystem"

single_cell_blood_flow_2

Six-Viruses-Temp

Mechanistic, trait-based R0 models for transmission of 6 mosquito-borne viruses (West Nile virus, Eastern and Western Equine Encephalitis viruses, St. Louis Encephalitis virus, Sindbis virus, and Rift Valley Fever virus), and validations with human case data for WNV, SLEV, and EEEV

T5DMS_data_analysis

Data and scripts for DMS of TRIM5

timshel-2020

Code to reproduce analysis and figures for 'Mapping heritability of obesity by cell types' (Timshel, bioRxiv 2020)

Zcwpw1

Project investigating the meiotic functions of Zcwpw1