Biocview "SequenceMatching"

Analysis of high-throughput sequencing data processed by restriction enzyme digestion

A Shiny Application for Quality Control, Filtering and Trimming of FASTQ Files

A tool for quantification of associations between genotypes and phenotypes in genome wide association studies (GWAS) with Bayesian inference and statistical learning

Basic4Cseq: an R/Bioconductor package for analyzing 4C-seq data

ChIPanalyser: Predicting Transcription Factor Binding Sites

CRISPR/Cas9 gRNA designer

crisprseekplus

Cut rDNA Sequences Into Domains Using Covariance Models

dagLogo

dagLogo: a bioconductor package for visualizeing conserved amino acid sequence pattern in groups based on probability theory

dagLogo: a Bioconductor package for visualizing conserved amino acid sequence pattern in groups based on probability theory

Data and functions for dealing with microRNAs

Data Independent Acquisition Library Editing to Convert The Species

de novo Annotation of Pack-TYPE Transposable Elements

Design Degenerate Oligos from a Multiple DNA Sequence Alignment

Design of target-specific guide RNAs in CRISPR-Cas9, genome-editing systems

Detect binding sites from motifs and ChIP-seq experiments, and compare binding sites across conditions

DiffLogo: A comparative visualisation of biooligomer motifs

DNA IP-seq data analysis

Dual redundant reference sequencing

EDLogo Plots Featuring String Logos and Adaptive Scaling of Position-Weight Matrices

Efficient manipulation of biological strings

Fast Sequence Mapping in High-Throughput shRNA and CRISPR Screens

Finding Co-occuring motifs of transcription factor binding sites

Find SNV/Indel differences between two bam files with near relationship

Flexible Heatmaps for Functional Genomics and Sequence Features

Functionality Visualization for Motifs

genphen: tool for quantification of genotype-phenotype associations in genome wide association studies (GWAS)

hapFabia: Identification of very short segments of identity by descent (IBD) characterized by rare variants in large sequencing data

Identification and Annotation of Protein Hotspot Residues

Identification of potential quadruplex forming sequences

Implementation of the dot bracket annotations with Biostrings

Inference on agreement between ordered lists

Infrastructure for Biostrings-based genome data packages

Integrating Functional Non-coding Datasets with Genetic Association Studies to Identify Candidate Regulatory SNPs

Interface to Call Programs from Infernal RNA Covariance Model Package

Interface to the RDP Classifier

Interlog protein network reconstruction by Mapping and Mining ANalysis

Introduce *Ranges to bedtools users

IPD IMGT/HLA and IPD KIR database for Homo sapiens

KinSwingR: network-based kinase activity prediction

LowMACA - Low frequency Mutation Analysis via Consensus Alignment

Mapping, quantification and variant analysis of sequencing data

Microbial Comparative Genomics in R

motif matching, comparison, and de novo discovery using the MEME Suite

Multiple Sequence Alignment with MUSCLE

Murine Palate miRNA Expression Analysis

NGS Read Simulator for FFPE Tissue

Perform Methylation Analysis on Next Generation Sequencing Data

Pipeline for single cell multi-omic data pre-processing

pipeline for single cell RNA-seq data analysis

Plot stacked logos for single or multiple DNA, RNA and amino acid sequence

Prediction of Protein Conserved Regions Using NADDA Algorithm

PWM enrichment analysis

Quasispecies Diversity

R Interface for the Basic Local Alignment Search Tool

R package for analysing TFBSs in DNA sequences

samExploreR package: high-performance read summarisation to count vectors with avaliability of sequencing depth reduction simulation

scanMiR

scanMiR shiny application

Search and visualize intramolecular triplex-forming sequences in DNA

Sequence logos for DNA sequence alignments

Set of tools to identify periodic occurrences of k-mers in DNA sequences

Software infrastructure for efficient representation of full genomes and their SNPs

SynMut: Designing Synonymously Mutated Sequences with Different Genomic Signatures

This package classifies putative polyadenylation sites as true or false/internally oligodT primed

TVTB: The VCF Tool Box

Visualising oligonucleotide patterns and motif occurrences across a set of sorted sequences

Biocview "SequenceMatching"

R Package Documentation

Browse R Packages

We want your feedback!