PIPETS: Poisson Identification of PEaks from Term-Seq data

Package: PIPETS 1.7.0

Quinlan Furumo

PIPETS: Poisson Identification of PEaks from Term-Seq data

PIPETS provides statistically robust analysis for 3'-seq/term-seq data. It utilizes a sliding window approach to apply a Poisson Distribution test to identify genomic positions with termination read coverage that is significantly higher than the surrounding signal. PIPETS then condenses proximal signal and produces strand specific results that contain all significant termination peaks.

Authors:Quinlan Furumo [aut, cre]

PIPETS_1.7.0.tar.gz
PIPETS_1.7.0.zip(r-4.7)PIPETS_1.7.0.zip(r-4.6)PIPETS_1.7.0.zip(r-4.5)
PIPETS_1.7.0.tgz(r-4.6-any)PIPETS_1.7.0.tgz(r-4.5-any)
PIPETS_1.7.0.tar.gz(r-4.7-any)PIPETS_1.7.0.tar.gz(r-4.6-any)
PIPETS_1.7.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
PIPETS/json (API)

# Install 'PIPETS' in R:

install.packages('PIPETS', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/qfurumo/pipets/issues

On BioConductor:PIPETS-1.9.0(bioc 3.24)PIPETS-1.8.0(bioc 3.23)

sequencing transcription generegulation peakdetection genetics transcriptomics coverage

3.00 score 2 scripts 1 exports 20 dependencies

Last updated from:6146b1fb14. Checks:1 NOTE, 9 OK. Indexed: yes.

Target	Result	Time
bioc-checks	NOTE	154
linux-devel-x86_64	OK	218
source / vignettes	OK	182
linux-release-x86_64	OK	235
macos-release-arm64	OK	129
macos-oldrel-arm64	OK	96
windows-devel	OK	111
windows-release	OK	129
windows-oldrel	OK	118
wasm-release	OK	121

Exports:PIPETS_FullRun

Dependencies:BiocGenerics cli dplyr generics GenomicRanges glue IRanges lifecycle magrittr pillar pkgconfig R6 rlang S4Vectors Seqinfo tibble tidyselect utf8 vctrs withr

Analyzing 3'-seq/Term-seq Data with PIPETS

Rendered fromPIPETS.Rmdusingknitr::rmarkdown

Help page	Topics
Analyze 3'-seq Data with PIPETS Poisson Identification of PEaks from Term-Seq data. This is the full run method that begins with input Bed file and returns the strand split results	PIPETS_FullRun

Help page

Topics

Analyze 3'-seq Data with PIPETS Poisson Identification of PEaks from Term-Seq data. This is the full run method that begins with input Bed file and returns the strand split results

PIPETS_FullRun

Package: PIPETS 1.7.0

PIPETS: Poisson Identification of PEaks from Term-Seq data

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Development and contributors

Readme and manuals

Help Manual

Usage by other packages (reverse dependencies)