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PeakSegDisk (version 2022.2.1)
Disk-Based Constrained Change-Point Detection
Description
Disk-based implementation of Functional Pruning Optimal Partitioning with up-down constraints
for single-sample peak calling (independently for each sample and genomic problem), can handle huge data sets (10^7 or more).
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Version
Version
2022.2.1
2020.8.13
2019.9.27
2019.9.10
2019.7.29
2018.11.28
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Install
install.packages('PeakSegDisk')
Monthly Downloads
870
Version
2022.2.1
License
GPL-3
Issues
2
Pull Requests
0
Stars
4
Forks
3
Repository
https://github.com/tdhock/PeakSegDisk
Maintainer
Toby Hocking
Last Published
February 2nd, 2022
Functions in PeakSegDisk (2022.2.1)
Search functions
ChIPreads
Reads aligned to hg19 from two ChIP-seq experiments
PeakSegFPOP_df
PeakSeg penalized solver for data.frame
summary.PeakSegFPOP_dir
summary PeakSegFPOP dir
wc2int
wc2int
Mono27ac
A small ChIP-seq data set in which peaks can be found using PeakSegFPOP
plot.PeakSegFPOP_dir
plot PeakSegFPOP dir
PeakSegFPOP_dir
PeakSeg penalized solver with caching
sequentialSearch_dir
Compute PeakSeg model with given number of peaks
col.name.list
col name list
fread.first
Quickly read first line
PeakSegFPOP_file
PeakSegFPOP using disk storage
PeakSegFPOP_vec
PeakSeg penalized solver for integer vector
writeBedGraph
Write bedGraph file
coef.PeakSegFPOP_dir
coef PeakSegFPOP dir
coef.PeakSegFPOP_df
coef PeakSegFPOP df
fread.last
Quickly read last line
plot.PeakSegFPOP_df
plot PeakSegFPOP df