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QuickFigures: a tool to quickly transform microscope images into quality figures

Mazo, G.

2020-09-24 cell biology
10.1101/2020.09.24.311282 bioRxiv
Show abstract

Publications involving fluorescent microscopy generally contain many panels with split channels, merged images, scale bars and label text. Assembling and editing these figures with even spacing, consistent font, text position, accurate scale bars and other features can be tedious and time consuming. In order to save time and streamline the process I have created a toolset called QuickFigures.

Matching journals

The top 6 journals account for 50% of the predicted probability mass.

1
PLOS ONE
● 5266 papers in training set
Top 10%
18.5%
Similar papers in this journal
2
Journal of Microscopy
○ 20 papers in training set
Top 0.1%
11.9%
Similar papers in this journal
3
Current Protocols
○ 15 papers in training set
Top 0.1%
9.8%
Similar papers in this journal
4
Biology Open
● 156 papers in training set
Top 0.2%
5.5%
Similar papers in this journal
5
BMC Bioinformatics
○ 457 papers in training set
Top 2%
3.4%
Similar papers in this journal
6
Wellcome Open Research
○ 67 papers in training set
Top 0.2%
3.2%
50% of probability mass above
7
Molecular Biology of the Cell
● 311 papers in training set
Top 1%
2.4%
8
STAR Protocols
○ 18 papers in training set
Top 0.1%
2.4%
9
Journal of Visualized Experiments
● 34 papers in training set
Top 0.2%
2.4%
10
Bioinformatics
◐ 1204 papers in training set
Top 6%
2.1%
11
eLife
● 5828 papers in training set
Top 45%
2.1%
12
PLOS Biology
● 486 papers in training set
Top 3%
2.1%
13
Journal of Cell Science
● 393 papers in training set
Top 3%
1.7%
14
Biological Imaging
◐ 15 papers in training set
Top 0.1%
1.5%
15
Nature Methods
○ 385 papers in training set
Top 5%
1.4%
16
Journal of Bioinformatics and Systems Biology
○ 15 papers in training set
Top 0.1%
1.3%
17
SoftwareX
○ 15 papers in training set
Top 0.2%
1.1%
18
Biology Methods and Protocols
◐ 61 papers in training set
Top 1%
1.1%
19
BMC Biology
○ 265 papers in training set
Top 3%
1.1%
20
MethodsX
○ 16 papers in training set
Top 0.1%
1.1%
21
BioTechniques
○ 25 papers in training set
Top 0.3%
1.0%
22
Scientific Reports
○ 3612 papers in training set
Top 67%
1.0%
23
PLOS Computational Biology
● 1863 papers in training set
Top 20%
0.8%
24
Nucleic Acids Research
◐ 1281 papers in training set
Top 13%
0.8%
25
Biophysical Journal
○ 631 papers in training set
Top 4%
0.8%
26
Life Science Alliance
● 285 papers in training set
Top 8%
0.8%
27
F1000Research
○ 88 papers in training set
Top 4%
0.8%
28
Biomedical Optics Express
● 95 papers in training set
Top 1%
0.6%
29
Nature Protocols
○ 33 papers in training set
Top 0.6%
0.6%
30
Biomolecules
○ 100 papers in training set
Top 4%
0.6%

"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.