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break-point-inspector
|
public |
BPI uses Manta’s variant calls to re-analyse BAM files and precisely determine the location of the breaks, and applies a set of filters to remove false positives, thereby increasing the accuracy of Manta’s calls.
|
2025-04-22 |
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bioconductor-gtrellis
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public |
Genome Level Trellis Layout
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2025-04-22 |
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bioconductor-mutationalpatterns
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public |
Comprehensive genome-wide analysis of mutational processes
|
2025-04-22 |
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seq-seq-pan
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public |
seq-seq-pan
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2025-04-22 |
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sicer
|
public |
A clustering approach for identification of enriched domains from histone modification ChIP-Seq data
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2025-04-22 |
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repenrich
|
public |
RepEnrich is a method to estimate repetitive element enrichment using high-throughput sequencing data.
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2025-04-22 |
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r-maldirppa
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public |
Provides methods for quality control and robust pre-processing and analysis of MALDI mass spectrometry data.
|
2025-04-22 |
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r-purbayes
|
public |
PurBayes is an MCMC-based algorithm that uses next-generation sequencing data to estimate tumor purity and clonality for paired tumor-normal data.
|
2025-04-22 |
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r-icluster
|
public |
Integrative clustering of multiple genomic data types using a joint latent variable model.
|
2025-04-22 |
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panx
|
public |
Microbial pan-genome analysis and exploration tool
|
2025-04-22 |
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r-metama
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public |
Combines either p-values or modified effect sizes from different studies to find differentially expressed genes
|
2025-04-22 |
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bioconductor-flowbeads
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public |
flowBeads: Analysis of flow bead data
|
2025-04-22 |
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perl-go-perl
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public |
perl modules for GO and other OBO ontologies
|
2025-04-22 |
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pneumocat
|
public |
PneumoCaT (Pneumococcal Capsular Typing) uses a two-step step approach to assign capsular type to S.pneumoniae genomic data (Illumina)
|
2025-04-22 |
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r-metarnaseq
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public |
Implementation of two p-value combination techniques (inverse normal and Fisher methods). A vignette is provided to explain how to perform a meta-analysis from two independent RNA-seq experiments.
|
2025-04-22 |
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r-smvar
|
public |
Implements the structural model for variances in order to detect differentially expressed genes from gene expression data
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2025-04-22 |
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reaper
|
public |
Tool for demultiplexing, trimming and filtering sequencing data.
|
2025-04-22 |
|
ont-tombo
|
public |
Detection of modified bases from raw nanopore sequencing data.
|
2025-04-22 |
|
bioconductor-bsseq
|
public |
Analyze, manage and store whole-genome methylation data
|
2025-04-22 |
|
bioconductor-isoformswitchanalyzer
|
public |
Identify, Annotate and Visualize Isoform Switches with Functional Consequences from both short- and long-read RNA-seq data
|
2025-04-22 |
|
bioconductor-drimseq
|
public |
Differential transcript usage and tuQTL analyses with Dirichlet-multinomial model in RNA-seq
|
2025-04-22 |
|
squizz
|
public |
Squizz is a sequence/alignment format checker, but it has some conversion capabilities too.
|
2025-04-22 |
|
watchdog-wms
|
public |
Watchdog, a WMS for the automated and distributed analysis of large-scale experimental data. The software is implemented in Java and is thus platform-independent. Main feature include + straightforward processing of replicate data + support for distributed computer systems + remote storage support + customizable error detection + manual intervention into workflow execution + GUI for workflow construction using pre-defined modules + a helper script for creating new module definitions + no restriction to specific programming languages + provides a flexible plugin system for extending without modifying the original sources
|
2025-04-22 |
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scanindel
|
public |
ScanIndel is a python program to detect indels (insertions and deletions) from NGS data by re-align and de novo assemble soft clipped reads.
|
2025-04-22 |
|
bioconductor-affyplm
|
public |
Methods for fitting probe-level models
|
2025-04-22 |
