-
Notifications
You must be signed in to change notification settings - Fork 4
/
Copy pathDESCRIPTION
62 lines (62 loc) · 2.01 KB
/
DESCRIPTION
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
Package: SEraster
Type: Package
Title: Rasterization Preprocessing Framework for Scalable Spatial Omics Data Analysis
Version: 0.99.2
Authors@R:
c(person("Gohta", "Aihara", email = "gaihara1@jh.edu",
role = c("aut", "cre"),
comment = c(ORCID = "0000-0002-2492-9610")),
person("Mayling", "Chen", email = "mchen161@jhu.edu",
role = c("aut"),
comment = c(ORCID = "0009-0009-0961-6665")),
person("Lyla", "Atta", email = "lylaatta@jhmi.edu",
role = c("aut"),
comment = c(ORCID = "0000-0002-6113-0082")),
person("Jean", "Fan", email = "jeanfan@jhu.edu",
role = c("aut", "rev"),
comment = c(ORCID = "0000-0002-0212-5451")))
URL: https://github.com/JEFworks-Lab/SEraster
BugReports: https://github.com/JEFworks-Lab/SEraster/issues
Description: SEraster is a rasterization preprocessing framework that aggregates
cellular information into spatial pixels to reduce resource requirements for
spatial omics data analysis. SEraster reduces the number of spatial points in
spatial omics datasets for downstream analysis through a process of rasterization
where single cells’ gene expression or cell-type labels are aggregated into
equally sized pixels based on a user-defined resolution. SEraster is built on
an R/Bioconductor S4 class called SpatialExperiment. SEraster can be incorporated
with other packages to conduct downstream analyses for spatial omics datasets,
such as detecting spatially variable genes.
biocViews:
Software,
Spatial,
GeneExpression,
Transcriptomics,
SingleCell,
Preprocessing
License: GPL-3
Encoding: UTF-8
LazyData: FALSE
Suggests:
CooccurrenceAffinity,
nnSVG,
testthat (>= 3.0.0),
knitr,
rmarkdown,
BiocManager,
MERINGUE,
remotes,
reshape2
VignetteBuilder: knitr
Config/testthat/edition: 3
RoxygenNote: 7.3.2
Depends:
R (>= 4.4.0)
Imports:
BiocParallel,
ggplot2,
Matrix,
methods,
rearrr,
sf,
SpatialExperiment,
SummarizedExperiment