elifesciences-publications Goto Github PK

cenote-taker

Divergent Virus & Mobile Element Genome Annotation Pipeline

centersurroundinteractions

Analysis and modeling code for "Receptive field center-surround interactions mediate context-dependent spatial contrast encoding in the retina"

ceph-dnm-manuscript

Code used for figure generation and statistical analysis for https://www.biorxiv.org/content/10.1101/552117v2

cerebellum_gradients

Github repository for cerebellum gradients project

cfna

cfos_oxt_image_analysis

MATLAB and R scripts to process microscopy image stacks for immuno stained oxytocin positive neurons

chatbandsdetection

chemex

Program to fit chemical exchange induced shift and relaxation data

chen.2018.response

These scripts and files were used to re-analyize the Chen et al., 2018 manuscript titled "Single nucleus sequencing reveals evidence of inter-nucleus recombination in arbuscular mycorrhizal fungi"

chen_tresenrider_et_al_2017

chip-seq_anidulans

Code for analysis of Aspergillus nidulans H3, H3K9ac and K3K14ac ChIP-Seq libraries

chittajallu-et-al-allen-mouse-cge-ngfcs

Data and code for Chittajallu et al., 2020 'Activity-dependent tuning of intrinsic excitability in mouse and human neurogliaform cells' https://www.biorxiv.org/content/10.1101/2020.03.24.004465v2

chlamy_model

chloroquine-concentration-fatality

Pooled analysis of mortality and QRS widening in chloroquine self-poisoning patients and healthy volunteers: estimating safety of currently trialled chloroquine regimens

chronic_neuropixels

A manuscript on the protocol on chronic recording from Neuropixels probes

chronic_neuropixels_2

chronicneuropixels

Neuropixels case for chronic recordings in freely moving mice.

ciliaq

An ImageJ plugin to quantify ciliary shape, length, and fluorescence.

ciliberti_elife2018_realtimereplay

cirseq4transcripterrors

Analysis pipelines to call and analyze transcript errors from CirSeq data

cl-example-data

LFP recordings from a Long-Evans rat before and after closed-loop theta phase-locked stimulation.

clustering-for-nagaeva-et.-al.-sst-vta

clusterpluck

clusterscovid19

Repo for description of Singapore and Tianjin COVID19 clusters, and related estimation

cmeanalysis

clathrin-mediated endocytosis analysis

cnapp

CNApp represents the first web tool to perform a comprehensive and integrative analysis of copy number alterations (CNAs) in a user-friendly interface. The software uses segmented data from either aCGH, SNP-array, whole-exome sequencing or whole-genome sequencing to assess sample profiles and CNA levels, establishing associations with molecular and clinical features. CNApp has three main sections: Re-Seg & Score, Region profile and Classifier model

cnmf

Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data

cnmf_e

Constrained Nonnegative Matrix Factorization for microEndoscopic data

cnn_attention

Simulation and analysis code for Lindsay and Miller 2018

co2-switch-analysis

This software is used to determine viral scission time from CO2 dependent modulation in fluorescence intensity