معرفی شرکت ها
r-cran-shazam_1.0.2-1_all.deb
تبلیغات ما
مشتریان به طور فزاینده ای آنلاین هستند. تبلیغات می تواند به آنها کمک کند تا کسب و کار شما را پیدا کنند.
مشاهده بیشتر
تبلیغات ما
مشتریان به طور فزاینده ای آنلاین هستند. تبلیغات می تواند به آنها کمک کند تا کسب و کار شما را پیدا کنند.
مشاهده بیشتر
تبلیغات ما
مشتریان به طور فزاینده ای آنلاین هستند. تبلیغات می تواند به آنها کمک کند تا کسب و کار شما را پیدا کنند.
مشاهده بیشتر
تبلیغات ما
مشتریان به طور فزاینده ای آنلاین هستند. تبلیغات می تواند به آنها کمک کند تا کسب و کار شما را پیدا کنند.
مشاهده بیشتر
تبلیغات ما
مشتریان به طور فزاینده ای آنلاین هستند. تبلیغات می تواند به آنها کمک کند تا کسب و کار شما را پیدا کنند.
مشاهده بیشترتوضیحات
Immunoglobulin Somatic Hypermutation Analysis
| ویژگی | مقدار |
|---|---|
| سیستم عامل | Linux |
| توزیع | Debian Bullseye-11 |
| مخزن | Debian main all |
| نام بسته | r-cran-shazam |
| نام فایل بسته | r-cran-shazam_1.0.2-1_all.deb |
| نسخه بسته | 1.0.2 |
| انتشار بسته | 1 |
| معماری بسته | all |
| نگهدارنده | Debian R Packages Maintainers <r-pkg-team@alioth-lists.debian.net> |
| تاریخ ساخت | - |
| هاست سازنده | - |
| نوع بسته | .deb |
| آدرس صفحه اصلی | https://cran.r-project.org/package=shazam |
| مجوز | - |
| حجم دانلود | 2142920 |
| حجم نصب | 2565 |
Provides a computational framework for Bayesian estimation of
antigen-driven selection in immunoglobulin (Ig) sequences, providing an
intuitive means of analyzing selection by quantifying the degree of
selective pressure. Also provides tools to profile mutations in Ig
sequences, build models of somatic hypermutation (SHM) in Ig sequences,
and make model-dependent distance comparisons of Ig repertoires.
.
SHazaM is part of the Immcantation analysis framework for Adaptive
Immune Receptor Repertoire sequencing (AIRR-seq) and provides tools for
advanced analysis of somatic hypermutation (SHM) in immunoglobulin (Ig)
sequences. Shazam focuses on the following analysis topics:
.
* Quantification of mutational load
SHazaM includes methods for determine the rate of observed and
expected mutations under various criteria. Mutational profiling
criteria include rates under SHM targeting models, mutations specific
to CDR and FWR regions, and physicochemical property dependent
substitution rates.
* Statistical models of SHM targeting patterns
Models of SHM may be divided into two independent components:
1) a mutability model that defines where mutations occur and
2) a nucleotide substitution model that defines the resulting mutation.
Collectively these two components define an SHM targeting
model. SHazaM provides empirically derived SHM 5-mer context mutation
models for both humans and mice, as well tools to build SHM targeting
models from data.
* Analysis of selection pressure using BASELINe
The Bayesian Estimation of Antigen-driven Selection in Ig Sequences
(BASELINe) method is a novel method for quantifying antigen-driven
selection in high-throughput Ig sequence data. BASELINe uses SHM
targeting models can be used to estimate the null distribution of
expected mutation frequencies, and provide measures of selection
pressure informed by known AID targeting biases.
* Model-dependent distance calculations
SHazaM provides methods to compute evolutionary distances between
sequences or set of sequences based on SHM targeting models. This
information is particularly useful in understanding and defining
clonal relationships.
نیازمندی
| مقدار | نام |
|---|---|
| >= 4.0.2-1 | r-base-core |
| - | r-api-4.0 |
| >= 3.2.0 | r-cran-ggplot2 |
| >= 1.0.2 | r-cran-alakazam |
| - | r-cran-ape |
| - | r-cran-diptest |
| - | r-cran-doparallel |
| >= 0.8.1 | r-cran-dplyr |
| - | r-cran-foreach |
| - | r-cran-igraph |
| - | r-cran-iterators |
| - | r-cran-kedd |
| - | r-cran-kernsmooth |
| - | r-cran-lazyeval |
| - | r-cran-mass |
| - | r-cran-progress |
| - | r-cran-rlang |
| - | r-cran-scales |
| - | r-cran-seqinr |
| >= 1.1.3 | r-cran-stringi |
| - | r-cran-tidyr |
| - | r-cran-tidyselect |
نحوه نصب
نصب پکیج deb r-cran-shazam:
sudo apt-get install r-cran-shazam_1.0.2-1_all.deb
فایل ها
| مسیرها |
|---|
| ./usr/lib/R/site-library/shazam/CITATION |
| ./usr/lib/R/site-library/shazam/DESCRIPTION |
| ./usr/lib/R/site-library/shazam/INDEX |
| ./usr/lib/R/site-library/shazam/Meta/Rd.rds |
| ./usr/lib/R/site-library/shazam/Meta/data.rds |
| ./usr/lib/R/site-library/shazam/Meta/features.rds |
| ./usr/lib/R/site-library/shazam/Meta/hsearch.rds |
| ./usr/lib/R/site-library/shazam/Meta/links.rds |
| ./usr/lib/R/site-library/shazam/Meta/nsInfo.rds |
| ./usr/lib/R/site-library/shazam/Meta/package.rds |
| ./usr/lib/R/site-library/shazam/Meta/vignette.rds |
| ./usr/lib/R/site-library/shazam/NAMESPACE |
| ./usr/lib/R/site-library/shazam/NEWS.md |
| ./usr/lib/R/site-library/shazam/R/shazam |
| ./usr/lib/R/site-library/shazam/R/shazam.rdb |
| ./usr/lib/R/site-library/shazam/R/shazam.rdx |
| ./usr/lib/R/site-library/shazam/R/sysdata.rdb |
| ./usr/lib/R/site-library/shazam/R/sysdata.rdx |
| ./usr/lib/R/site-library/shazam/data/Rdata.rdb |
| ./usr/lib/R/site-library/shazam/data/Rdata.rds |
| ./usr/lib/R/site-library/shazam/data/Rdata.rdx |
| ./usr/lib/R/site-library/shazam/doc/Baseline-Vignette.R |
| ./usr/lib/R/site-library/shazam/doc/Baseline-Vignette.Rmd |
| ./usr/lib/R/site-library/shazam/doc/Baseline-Vignette.pdf |
| ./usr/lib/R/site-library/shazam/doc/DistToNearest-Vignette.R |
| ./usr/lib/R/site-library/shazam/doc/DistToNearest-Vignette.Rmd |
| ./usr/lib/R/site-library/shazam/doc/DistToNearest-Vignette.pdf |
| ./usr/lib/R/site-library/shazam/doc/Mutation-Vignette.R |
| ./usr/lib/R/site-library/shazam/doc/Mutation-Vignette.Rmd |
| ./usr/lib/R/site-library/shazam/doc/Mutation-Vignette.pdf |
| ./usr/lib/R/site-library/shazam/doc/Shmulate-Vignette.R |
| ./usr/lib/R/site-library/shazam/doc/Shmulate-Vignette.Rmd |
| ./usr/lib/R/site-library/shazam/doc/Shmulate-Vignette.pdf |
| ./usr/lib/R/site-library/shazam/doc/Targeting-Vignette.R |
| ./usr/lib/R/site-library/shazam/doc/Targeting-Vignette.Rmd |
| ./usr/lib/R/site-library/shazam/doc/Targeting-Vignette.pdf |
| ./usr/lib/R/site-library/shazam/doc/index.html |
| ./usr/lib/R/site-library/shazam/help/AnIndex |
| ./usr/lib/R/site-library/shazam/help/aliases.rds |
| ./usr/lib/R/site-library/shazam/help/paths.rds |
| ./usr/lib/R/site-library/shazam/help/shazam.rdb |
| ./usr/lib/R/site-library/shazam/help/shazam.rdx |
| ./usr/lib/R/site-library/shazam/html/00Index.html |
| ./usr/lib/R/site-library/shazam/html/R.css |
| ./usr/share/doc/r-cran-shazam/changelog.Debian.gz |
| ./usr/share/doc/r-cran-shazam/copyright |
| ./usr/share/lintian/overrides/r-cran-shazam |