Paketti: python3-seqcluster (1.2.9+ds-4) [contrib]

[ Source: python-seqcluster  ]

analysis of small RNA in NGS data

Identifies small RNA sequences of all sorts in RNA sequencing data. This is especially helpful for the identification of RNA that is neither coding nor belonging to the already well-established group of miRNA, towards many tools feel constrained to.

This package provides the Python module. For executables see the package 'seqcluster'.

Muut pakettiin python3-seqcluster liittyvät paketit

• dep: python3

  interactive high-level object-oriented language (default python3 version)

• dep: python3-colorlog

  formatter to use with the logging module of Python 3

• dep: python3-mirtop

  annotate miRNAs with a standard mirna/isomir naming (Python 3)

• dep: python3-myst-parser

  rich and extensible flavor of Markdown for technical docs

• dep: python3-numpy

  Fast array facility to the Python language (Python 3)

• dep: python3-pandas

  data structures for "relational" or "labeled" data

• dep: python3-progressbar

  text progress bar library for Python (Python 3)

• dep: python3-pybedtools

  Python 3 wrapper around BEDTools for bioinformatics work

• dep: python3-pysam

  interface for the SAM/BAM sequence alignment and mapping format (Python 3)

• dep: python3-scipy

  scientific tools for Python 3

• dep: python3-yaml

  YAML parser and emitter for Python3

• rec: bedtools

  suite of utilities for comparing genomic features

• rec: bowtie2

  ultrafast memory-efficient short read aligner

  tai bowtie

  Ultrafast memory-efficient short read aligner

• rec: fastqc

  quality control for high throughput sequence data

• rec: libjs-bootstrap

  HTML, CSS and JS framework

• rec: libjs-jquery

  JavaScript library for dynamic web applications

• rec: libjs-jquery-datatables

  jQuery plug-in that makes nice tables from different data sources

• rec: libjs-jquery-tablesorter

  jQuery flexible client-side table sorting plugin

• rec: libjs-jquery-ui

  JavaScript UI library for dynamic web applications

• rec: mirtop

  annotate miRNAs with a standard mirna/isomir naming

• rec: python3-cutadapt

  Clean biological sequences from high-throughput sequencing reads (Python 3)

• rec: python3-dateutils

  Paketti ei saatavilla

• rec: python3-tz

  Python3 version of the Olson timezone database

• rec: r-bioc-degreport

  BioConductor report of DEG analysis

• rec: r-bioc-deseq2

  R package for RNA-Seq Differential Expression Analysis

• rec: r-bioc-edger

  Empirical analysis of digital gene expression data in R

• rec: r-bioc-htsfilter

  GNU R filter replicated high-throughput transcriptome sequencing data

• rec: r-cran-devtools

  Tools to Make Developing R Packages Easier

• rec: r-cran-dplyr

  GNU R grammar of data manipulation

• rec: r-cran-ggplot2

  implementation of the Grammar of Graphics

• rec: r-cran-gplots

  GNU R package with tools for plotting data by Greg Warnes et al

• rec: r-cran-gridextra

  GNU R package with extensions for the grid package

• rec: r-cran-gtools

  GNU R package with R programming tools by Greg Warnes et al

• rec: r-cran-knitr

  GNU R package for dynamic report generation using Literate Programming

• rec: r-cran-pheatmap

  GNU R package to create pretty heatmaps

• rec: r-cran-reshape

  Flexibly reshape data

• rec: rna-star

  ultrafast universal RNA-seq aligner

• rec: samtools

  processing sequence alignments in SAM, BAM and CRAM formats

• rec: vienna-rna

  RNA sequence analysis

• sug: seqcluster

  analysis of small RNA in NGS data

Imuroi python3-seqcluster

Imurointi kaikille saataville arkkitehtuureille

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