bioc-issue-bot
commented
3 months ago Hi @Elizaddh
Thanks for submitting your package. We are taking a quick look at it and you will hear back from us soon.
The DESCRIPTION file for this package is:
Package: pathwrap
Title: Wrapper for Automated RNASeq Data analysis and pathway visualization
Version: 0.99.0
Authors@R:
person("Eliza", "Dhungel","", "elidhungel@gmail.com",
role = c("aut", "cre"),
comment = c(ORCID = "0000-0002-7246-9452"))
Description:
Pathwrap is a RNASeq analysis tool that provides a wrapper
for the processing of RNASeq datasets from quality control of raw
reads to the visualization of enriched pathways obtained from processing
the datasets. This tool runs all the essential steps of RNASeq processing
from quality control, filtering out low quality reads, trimming adapters,
sequence alignment, alignment count, differential analysis, enrichment
analysis and pathway visualization. It is the first tool that combines
all essential steps of RNASeq analysis till pathway visualization. It has
the ability to continue the analysis if it is halted at any stage and
generate quality pictures and generate comprehensive analysis of the data.
Results of metabolomics experiment generating quantitative compound
information can be integrated with RNAseq data analysis and pathway
visualization.
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
URL: https://github.com/Kannapolis-Bioinformatics/pathwrap
BugReports: https://github.com/Kannapolis-Bioinformatics/pathwrap/issues
RoxygenNote: 7.3.1
Imports:
stats,
utils,
grDevices,
methods,
DESeq2,
EnhancedVolcano,
edgeR,
fastqcr,
gage,
GenomicFeatures,
ggplot2,
parallel,
Rfastp,
ShortRead,
pathview,
QuasR,
tools,
Rsamtools,
Rhisat2,
AnnotationDbi,
stringr,
S4Vectors,
ComplexHeatmap,
SummarizedExperiment,
KEGGREST
Depends:
R (>= 4.3.0)
License: MIT + file LICENSE
biocViews:
Alignment,
Pathways,
QualityControl,
Sequencing,
RNASeq,
ChIPSeq,
GeneExpression,
Transcription,
ExperimentalDesign,
Metabolomics
Suggests:
RUnit,
BiocManager,
BiocStyle,
knitr,
rmarkdown,
BiocGenerics
VignetteBuilder: knitr
VignetteEngine: knitr, rmarkdown
lshep
Elizaddh
vjcitn
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