DeepProfiler/CITATION.cff at master · cytomining/DeepProfiler · GitHub

1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
# This CITATION.cff file was generated with cffinit.
# Visit https://bit.ly/cffinit to generate yours today!
---
cff-version: 1.2.0
title: DeepProfiler
message: >-
  If you use this software, please cite it using the
  metadata from this file.
type: software
authors:
  - given-names: Juan C.
    family-names: Caicedo
  - given-names: Nikita
    family-names: Moshkov
  - given-names: Shantanu
    family-names: Singh
  - given-names: Claire
    family-names: McQuin
  - given-names: Santiago
    family-names: Benoit
  - given-names: Matthew
    family-names: Smith
  - given-names: Peter
    family-names: Goldsborough
repository-code: 'https://github.com/cytomining/DeepProfiler'
url: 'https://cytomining.github.io/DeepProfiler-handbook/'
identifiers:
  - description: Manuscript DOI
    type: doi
    value: "10.1038/s41467-024-45999-1"
  - description: Cell Painting CNN weights DOI
    type: doi
    value: "10.5281/zenodo.7114558"
abstract: >-
  DeepProfiler is a set of tools for representation learning in high-throughput
  image-based profiling experiments. It supports feature extraction from
  microscopy images using deep learning models, producing single-cell morphology
  embeddings suitable for downstream analysis.
keywords:
  - python
  - deep-learning
  - image-based-profiling
  - microscopy
  - cell-painting
  - single-cell-analysis
  - feature-extraction
license: BSD-3-Clause
preferred-citation:
  type: article
  title: "Learning representations for image-based profiling of perturbations"
  journal: "Nature Communications"
  volume: 15
  year: 2024
  doi: "10.1038/s41467-024-45999-1"
  authors:
    - given-names: Nikita
      family-names: Moshkov
    - given-names: Michael
      family-names: Bornholdt
    - given-names: Santiago
      family-names: Benoit
    - given-names: Matthew
      family-names: Smith
    - given-names: Claire
      family-names: McQuin
    - given-names: Allen
      family-names: Goodman
    - given-names: Rebecca A.
      family-names: Senft
    - given-names: Yu
      family-names: Han
    - given-names: Mehrtash
      family-names: Babadi
    - given-names: Peter
      family-names: Horvath
    - given-names: Beth A.
      family-names: Cimini
    - given-names: Anne E.
      family-names: Carpenter
    - given-names: Shantanu
      family-names: Singh
    - given-names: Juan C.
      family-names: Caicedo