Paketti: r-cran-alakazam (1.2.1-1)

Links for r-cran-alakazam

Debian-palvelut:

Imuroi lähdekoodipaketti r-cran-alakazam:

Ylläpitäjät:

External Resources:

Kotisivu [cran.r-project.org]

Samankaltaisia paketteja:

Immunoglobulin Clonal Lineage and Diversity Analysis

Alakazam is part of the Immcantation analysis framework for Adaptive Immune Receptor Repertoire sequencing (AIRR-seq) and provides a set of tools to investigate lymphocyte receptor clonal lineages, diversity, gene usage, and other repertoire level properties, with a focus on high-throughput immunoglobulin (Ig) sequencing.

Alakazam serves five main purposes:

 * Providing core functionality for other R packages in the Immcantation
   framework. This includes common tasks such as file I/O, basic DNA
   sequence manipulation, and interacting with V(D)J segment and gene
   annotations.
 * Providing an R interface for interacting with the output of the
   pRESTO and Change-O tool suites.
 * Performing lineage reconstruction on clonal populations of Ig
   sequences and analyzing the topology of the resultant lineage trees.
 * Performing clonal abundance and diversity analysis on lymphocyte
   repertoires.
 * Performing physicochemical property analyses of lymphocyte receptor
   sequences.

Muut pakettiin r-cran-alakazam liittyvät paketit

depends

recommends

suggests

enhances

dep: libc6 (>= 2.4)

GNU-C-kirjasto: jaetut kirjastot
myös näennäispaketti, jonka toteuttaa libc6-udeb
dep: libgcc-s1 (>= 3.0)

GCC:n apukirjasto
dep: libstdc++6 (>= 5.2)

GNU standardi C++ -kirjasto, versio 3
dep: r-api-4.0

näennäispaketti, jonka toteuttaa r-base-core
dep: r-base-core (>= 4.2.1-2)

GNU R core of statistical computation and graphics system
dep: r-bioc-biostrings (>= 2.56.0)

GNU R string objects representing biological sequences
dep: r-bioc-genomicalignments (>= 1.24.0)

BioConductor representation and manipulation of short genomic alignments
dep: r-bioc-iranges (>= 2.22.2)

GNU R low-level containers for storing sets of integer ranges
dep: r-cran-airr (>= 1.3)

GNU R AIRR data representation reference library
dep: r-cran-ape

GNU R package for Analyses of Phylogenetics and Evolution
dep: r-cran-dplyr (>= 1.0)

GNU R grammar of data manipulation
dep: r-cran-ggplot2 (>= 3.3.4)

implementation of the Grammar of Graphics
dep: r-cran-igraph (>= 1.0)

GNU R network analysis and visualization
dep: r-cran-matrix (>= 1.3-0)

GNU R package of classes for dense and sparse matrices
dep: r-cran-progress

GNU R terminal progress bars
dep: r-cran-rcpp (>= 0.12.12)

GNU R package for Seamless R and C++ Integration
dep: r-cran-readr

GNU R package to read rectangular text data
dep: r-cran-rlang

Functions for Base Types and Core R and 'Tidyverse' Features
dep: r-cran-scales

Scale functions for visualization
dep: r-cran-seqinr

GNU R biological sequences retrieval and analysis
dep: r-cran-stringi

GNU R character string processing facilities
dep: r-cran-tibble

GNU R Simple Data Frames
dep: r-cran-tidyr (>= 1.0)

GNU R package to easily tidy data

sug: r-cran-knitr

GNU R package for dynamic report generation using Literate Programming
sug: r-cran-rmarkdown

convert R markdown documents into a variety of formats
sug: r-cran-testthat

GNU R testsuite

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