Calico

Repositories

• impulse

  Fit phenomenological sigmoid and impulse curves with priors to improve interpretability
  R 2 3 0 0 Updated Jun 2, 2020

• basenji

  Sequential regulatory activity predictions with deep convolutional neural networks.
  Python Apache-2.0 40 106 7 2 Updated Jun 1, 2020

• solo

  software to detect doublets
  Python MIT 2 10 3 0 Updated Jun 1, 2020

• scmmd

  Maximum mean discrepancy comparisons for single cell profiling experiments

  rna-seq single-cell maximum-mean-discrepancy
  Python Apache-2.0 0 1 0 0 Updated Apr 3, 2020

• velodyn

  Dynamical systems methods for RNA velocity analysis

  rna-seq dynamical-systems single-cell rna-velocity
  Python Apache-2.0 0 5 0 0 Updated Apr 3, 2020

• 2019_murine_cell_aging

  Tools associated with the Calico Murine Aging Cell Atlas, Kimmel 2019 et. al., Genome Research

  rna-seq single-cell aging cell-atlas
  Python Apache-2.0 0 0 0 0 Updated Apr 2, 2020

• AAC_scoring

  Map DEXA images from UKBB dataset to abdominal aortic calcification scores
  Python 0 0 0 0 Updated Mar 17, 2020

• stimulated_emission_imaging

  Forked from AndrewGYork/stimulated_emission_imaging

  A scientific publication that describes experiments to explore whether stimulated emission from a pointlike emitter is distinguishable from the stimulating beam. This repository hosts everything you need to reproduce our results. Read the publication here: https://calico.github.io/stimulated_emission_imaging

  physics optics scientific-publications microscopy
  Python 2 0 0 0 Updated Mar 13, 2020

• scnym

  Neural networks for classification of single cell transcriptomics data

  rna-seq single-cell single-cell-genomics
  Jupyter Notebook Apache-2.0 1 9 1 0 Updated Oct 23, 2019

• ElMaven

  Forked from ElucidataInc/ElMaven

  LC-MS data processing engine for large-scale metabolomic experiments.
  C++ GPL-2.0 34 1 0 0 Updated Jul 24, 2019

• adaptive_interference_inference

  Forked from AndrewGYork/adaptive_interference_inference

  A mathematical optimization problem, inspired by an apparent paradox in the physics of optical measurement. Read the micro-publication here: https://calico.github.io/adaptive_interference_inference

  puzzle optimization physics mathematics question paradox optics
  HTML 1 3 0 0 Updated Oct 18, 2018

• remote_refocus

  A scientific publication, describing a way to improve microscopy. This repository hosts everything you need to reproduce our results. Read the publication here: https://calico.github.io/remote_refocus/

  hardware optics hardware-designs scientific-publications microscopy
  Python 0 2 0 0 Updated Oct 17, 2018

• rescan_line_sted

  A scientific publication, describing a way to improve microscopy. This repository hosts everything you need to reproduce our results. Read the publication here: https://calico.github.io/rescan_line_sted

  physics simulations physics-simulation scientific-publications microscopy
  Python 0 3 0 0 Updated Jul 18, 2018

• hendrickson_2017_supplement

  Supplemental material for the Hendrickson et. al 2017 paper.
  Python Apache-2.0 1 1 0 0 Updated Jul 10, 2017