GenomicAlignments | cran | Package Usage

malnirav/hiReadsProcessor

Process LM-PCR product libraries

* DESCRIPTION

Size: 29.6 MB - Last synced: about 1 year ago - Pushed: almost 3 years ago

daniilidisK/TSSextractR

An R/Shiny Package for Bacterial TSS extraction, using Cappable-seq

* DESCRIPTION

Size: 15.2 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

kerenli/RiboDiPA_updating

* DESCRIPTION

Size: 1.71 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago

APAlyzer is a toolkit for bioinformatic analysis of alternative polyadenylation (APA) events using RNA sequencing data. Our main approach is the comparison of sequencing reads in regions demarcated by high-quality polyadenylation sites (PASs) annotated in the PolyA_DB database (https://exon.apps.wistar.org/PolyA_DB/v3/). The current version (v3.0) uses RNA-seq data to examine APA events in 3’ untranslated regions (3’UTRs) and in introns. The coding regions are used for gene expression calculation.

* DESCRIPTION

Size: 18.7 MB - Last synced: 6 months ago - Pushed: almost 2 years ago

cran/RAPIDR

:exclamation: This is a read-only mirror of the CRAN R package repository. RAPIDR — Reliable Accurate Prenatal non-Invasive Diagnosis R package

* DESCRIPTION

Size: 1.06 MB - Last synced: 7 months ago - Pushed: over 9 years ago

scottzijiezhang/MeRIPtools

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Size: 151 KB - Last synced: 11 months ago - Pushed: over 2 years ago

Bioconductor/GenomicFiles

Distributed computing by file or by range

>= 1.7.7 DESCRIPTION

Size: 1020 KB - Last synced: 10 days ago - Pushed: 17 days ago

kendomaniac/embl120215

Exercises for EMBL Course 2015

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Size: 3.96 MB - Last synced: about 1 year ago - Pushed: over 3 years ago

Bioconductor/ENAR2016

Introduction to High Throughput Data Analysis Using R / Bioconductor

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Size: 320 KB - Last synced: 10 days ago - Pushed: about 1 year ago

Bioconductor/UseBioconductor

Training material for intermediate R / Bioconductor courses

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Size: 4.28 MB - Last synced: 10 days ago - Pushed: about 1 year ago

fmicompbio/swissknife

Handy code shared in the FMI CompBio group

* DESCRIPTION

Size: 37.3 MB - Last synced: about 13 hours ago - Pushed: about 14 hours ago

r-pkg-team/r-bioc-rtracklayer

r-bioc-rtracklayer packaging

>=1.15.6 DESCRIPTION

Last synced: over 1 year ago

RamsinghLab/ATACseeker

ATACseq tools for Bioconductor

* DESCRIPTION

Size: 1.77 MB - Last synced: 7 months ago - Pushed: about 6 years ago

gladkia/igvR

An R Bioconductor package providing interactive connections to igv.js (the Integrative Genomics Viewer) in a web browser

* DESCRIPTION

Size: 61.5 MB - Last synced: about 22 hours ago - Pushed: 4 months ago

vodkatad/roar

http://www.bioconductor.org/developers/release-schedule/

>= 0.99.4 DESCRIPTION

Size: 1.29 MB - Last synced: about 4 hours ago - Pushed: about 4 years ago

leslielab/genomiccache

Keep original code compatible with newer versions of Bioconductor

* DESCRIPTION

Size: 10.5 MB - Last synced: over 1 year ago

mrccsc/soggi

Summarising Over Grouped Genomic Intervals

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Size: 9.5 MB - Last synced: about 1 year ago - Pushed: over 8 years ago

mikelove/alpineData

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Size: 27.3 KB - Last synced: 10 days ago - Pushed: almost 8 years ago

trichelab/MTseeker

mitochondrial variant analysis tools

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Size: 9.25 MB - Last synced: 30 days ago - Pushed: about 3 years ago

MANO-B/MicroSEC

MicroSEC filtering pipeline for FFPE artifacts

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Size: 7.25 MB - Last synced: 5 months ago - Pushed: about 1 year ago

markrobinsonuzh/DAMEfinder

Finds DAMEs - Differential Allelicly MEthylated regions

* DESCRIPTION

Size: 49.9 MB - Last synced: 2 months ago - Pushed: about 1 year ago

lawremi/ggbio

Grid and ggplot2 based visualization for biological data

>= 1.1.16 DESCRIPTION

Size: 22.7 MB - Last synced: 11 days ago - Pushed: 7 months ago

zentnerlab/TSRexploreR

* DESCRIPTION

Size: 72.2 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

Monash-RNA-Systems-Biology-Laboratory/tail-tools

Tools for analysing PAT-Seq high-throughput sequencing data.

* tail_tools/DESCRIPTION

Size: 735 KB - Last synced: 13 days ago - Pushed: 13 days ago

YuLab-SMU/seqmagick

sequence manipulation

* DESCRIPTION

Size: 460 KB - Last synced: 12 days ago - Pushed: 3 months ago

MariaOsmala/preprint

This package is a PRobabilistic Enhancer PredictIoN Tool PREPRINT

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Size: 292 KB - Last synced: 3 months ago - Pushed: over 1 year ago

Bioconductor/EfficientScalableLab

package for 'Management and analysis of large genomic data' lab

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Size: 13.7 KB - Last synced: 10 days ago - Pushed: about 1 year ago

dkeitley/scrabbitr

R package used to analyse the Ton et al. 2022 rabbit single-cell transcriptomics data.

* DESCRIPTION

Size: 64.5 KB - Last synced: 10 months ago - Pushed: over 1 year ago

Roleren/ORFik

>= 1.19.0 DESCRIPTION

Size: 4.21 MB - Last synced: 30 days ago - Pushed: 30 days ago

lawremi/biovizBase

>= 1.1.16 DESCRIPTION

Size: 3.69 MB - Last synced: about 1 year ago - Pushed: about 3 years ago

lcalviell/ORFquant

An R package for Splice-aware quantification of translation using Ribo-seq data

* DESCRIPTION

Size: 3.85 MB - Last synced: 2 months ago - Pushed: 5 months ago

Barski-lab/biowardrobe 📦

BioWardrobe: an integrated platform for analysis of epigenomics and transcriptomics data

* scripts/R/wardrobe/DESCRIPTION

Size: 17.3 MB - Last synced: about 1 month ago - Pushed: about 4 years ago

rfenouil/r_packages

* Pasha/DESCRIPTION

Size: 1.74 MB - Last synced: over 1 year ago

lzcyzm/Travis_Dev

Develop Version of Travis Package

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Size: 563 KB - Last synced: 2 months ago - Pushed: almost 9 years ago

rnabioco/raer

Characterize A-to-I RNA editing in bulk and single-cell RNA sequencing experiments

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Size: 19 MB - Last synced: about 1 month ago - Pushed: 2 months ago

blaserlab/blaseRtools

R Tools for Blaser Lab Data Analysis

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Size: 68.3 MB - Last synced: 23 days ago - Pushed: 24 days ago

CharlesJB/metagene

* DESCRIPTION

Size: 21.9 MB - Last synced: 5 months ago - Pushed: almost 3 years ago

r-pkg-team/r-bioc-degnorm

DegNorm: degradation normalization for RNA-seq data

* DESCRIPTION

Last synced: over 1 year ago

jeffbhasin/methylaction

Differentially Methylated Regions (DMRs) from MBD-isolated Genome Sequencing (MiGS/MBD-seq)

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Size: 350 KB - Last synced: 7 months ago - Pushed: almost 4 years ago

juanlmateo/idear

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Size: 362 KB - Last synced: over 1 year ago

jianhong/trackViewer

A bioconductor package with minimalist design for drawing elegant tracks or lollipop plot

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Size: 22.3 MB - Last synced: 3 days ago - Pushed: 4 days ago

yuhenglu/tagseq

* DESCRIPTION

Size: 16.9 MB - Last synced: over 1 year ago

nhayden/Rsamtools

* DESCRIPTION

Size: 12.1 MB - Last synced: 26 days ago - Pushed: almost 9 years ago

ivanek/Gviz

This is the Gviz development repository. Gviz plots data and annotation information along genomic coordinates.

>= 1.1.16 DESCRIPTION

Size: 36 MB - Last synced: 11 days ago - Pushed: 6 months ago

tgirke/systemPipeR

Project Website:

* DESCRIPTION

Size: 337 MB - Last synced: about 2 months ago - Pushed: about 2 months ago

Przemol/seqplots

:chart_with_upwards_trend:SeqPlots - An interactive tool for visualizing NGS signals and sequence motif densities along genomic features using average plots and heatmaps.

* DESCRIPTION

Size: 24.1 MB - Last synced: 7 months ago - Pushed: about 2 years ago

michaelgruenstaeudl/PACVr

Plastome Assembly Coverage Visualization in R

>= 1.18.1 DESCRIPTION

Size: 49.8 MB - Last synced: 6 days ago - Pushed: about 1 month ago

HLindsay/CrispRVariants

Tools for counting and visualising variant alleles in CRISPR mutagenesis sequencing data

* DESCRIPTION

Size: 2.86 MB - Last synced: about 1 year ago - Pushed: almost 6 years ago

cran/Pasha

:exclamation: This is a read-only mirror of the CRAN R package repository. Pasha — Preprocessing of Aligned Sequences from HTS Analyses

* DESCRIPTION

Size: 1.25 MB - Last synced: 9 months ago - Pushed: about 8 years ago

leslielab/hic.dc

* DESCRIPTION

Size: 891 MB - Last synced: over 1 year ago

sidiropoulos/RNAprobR

This is a read-only mirror of the Bioconductor SVN repository. Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=RNAprobR. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/RNAprobR

>= 1.5.12 DESCRIPTION

Size: 1.38 MB - Last synced: 2 months ago - Pushed: over 6 years ago

LaureLC/R_package_RBPSpliceMap

This repository contain a R package. This package is intended to manipulate CLIP data and summarize them along genomic regions. Typically it can be use to draw RNA splice map. It allows to select a chromosome, strand and interval of interest. It gives numerical and graphical results about the coverage of splice sites and their surroundings.

>= 1.1.16 RBPSpliceMap/DESCRIPTION

Size: 1.2 MB - Last synced: about 1 year ago - Pushed: almost 9 years ago

hjanime/gage

This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/gage.html Contributions: http://www.biomedcentral.com/1471-2105/10/161. Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=gage.

* DESCRIPTION

Size: 5.41 MB - Last synced: 7 months ago - Pushed: about 9 years ago

markrobinsonuzh/CrispRVariants

* DESCRIPTION

Size: 2.42 MB - Last synced: 2 months ago - Pushed: over 3 years ago

mikelove/bioc2015rnaseq

materials for the Bioc2015 RNA-seq workshop

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Size: 165 KB - Last synced: 10 days ago - Pushed: almost 9 years ago

rcastelo/atena

Analysis of transposable elements

* DESCRIPTION

Size: 12.7 MB - Last synced: 16 days ago - Pushed: 17 days ago

InesdeSantiago/BaalChIP

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Size: 80.8 MB - Last synced: 7 months ago - Pushed: about 3 years ago

lzcyzm/Travis

Transcriptomic Vew of Genomic Features

* DESCRIPTION
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Size: 309 KB - Last synced: 2 months ago - Pushed: almost 9 years ago

Bioconductor/IRanges

Foundation of integer range manipulation in Bioconductor

* DESCRIPTION

Size: 4.33 MB - Last synced: 10 days ago - Pushed: 18 days ago

dktanwar/shortRNA

short RNA-seq analysis package

* DESCRIPTION

Last synced: over 1 year ago

Vivianstats/AIDE

AIDE: annotation-assisted isoform discovery and quantification from RNA-seq data

* DESCRIPTION

Size: 230 KB - Last synced: about 1 year ago - Pushed: almost 2 years ago

r-pkg-team/r-cran-alakazam

>= 1.24.0 DESCRIPTION

Last synced: over 1 year ago

r-pkg-team/r-bioc-cner

CNE Detection and Visualization

>= 1.1.9 DESCRIPTION

Last synced: over 1 year ago

mikelove/alpine

Modeling and correcting fragment sequence bias for RNA-seq

* DESCRIPTION

Size: 1.28 MB - Last synced: 5 days ago - Pushed: 5 days ago

Bioconductor/BioC2015Introduction

Introduction to R and Bioconductor session at BioC2015 July 20-22, Seattle, Wa

* DESCRIPTION

Size: 545 KB - Last synced: 10 days ago - Pushed: about 1 year ago

SimiliSerpent/comaturationTracker

This repository contains the R package comaturation_tracker.

* DESCRIPTION

Size: 654 KB - Last synced: about 1 year ago - Pushed: almost 2 years ago

oneillkza/ContiBAIT

* DESCRIPTION

Size: 10.3 MB - Last synced: 7 months ago - Pushed: almost 4 years ago

stiv1n/CYCLeR

circRNA assembly tool

* DESCRIPTION

Size: 5.71 MB - Last synced: about 1 year ago - Pushed: over 1 year ago

dankoc/groHMM

General analysis package for short read data. Provides a specific emphasis on GRO-seq analysis.

* DESCRIPTION

Size: 34.1 MB - Last synced: 7 months ago - Pushed: over 9 years ago

GreenleafLab/ChrAccR

Analyzing chromatin accessibility data in R

* DESCRIPTION

Size: 10 MB - Last synced: about 1 year ago - Pushed: about 1 year ago

SRenan/PICS

* DESCRIPTION

Size: 2.57 MB - Last synced: 9 days ago - Pushed: over 4 years ago

jeevb/star

A human-friendly wrapper around STAR (https://github.com/alexdobin/STAR) in R.

* DESCRIPTION

Size: 768 KB - Last synced: over 1 year ago

senzhaocode/FuSViz

A web app to visualise, interpret and prioritise genomic/transcriptomic structural variations (SVs) of multiple samples.

* DESCRIPTION

Size: 78.9 MB - Last synced: 7 days ago - Pushed: 7 days ago

jianhong/ATACseqQC

ATAC-seq Quality Control

* DESCRIPTION

Size: 22.1 MB - Last synced: 10 days ago - Pushed: 13 days ago

hw538/cfDNAPro

cfDNAPro specializes in standardized and robust cfDNA fragmentomic analysis

* DESCRIPTION

Size: 2.67 MB - Last synced: about 7 hours ago - Pushed: about 1 month ago

ykong2/MADSEQ

MADSEQ-R package for mosaic aneuploidy detection

* DESCRIPTION

Size: 45.2 MB - Last synced: 28 days ago - Pushed: about 6 years ago

dongjunchung/mosaics

MOdel-based one and two Sample Analysis and Inference for ChIP-Seq

* DESCRIPTION

Size: 2.14 MB - Last synced: 5 months ago - Pushed: about 4 years ago

HenrikBengtsson/Repitools

This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/Repitools.html Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=Repitools.