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iced
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public |
The python module iced implements the ICE normalization of hic data.
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2025-01-22 |
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kleborate
|
public |
Kleborate: a tool for typing and screening pathogen genome assemblies
|
2025-01-21 |
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sra-tools
|
public |
The SRA Toolkit and SDK from NCBI.
|
2025-01-21 |
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deeptools
|
public |
A set of user-friendly tools for normalization and visualzation of deep-sequencing data
|
2025-01-20 |
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mmseqs2
|
public |
MMseqs2: ultra fast and sensitive sequence search and clustering suite
|
2025-01-18 |
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libbigwig
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public |
A C library for handling bigWig files
|
2025-01-17 |
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bioconductor-biostrings
|
public |
Efficient manipulation of biological strings
|
2025-01-17 |
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htstream
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public |
HTStream is a quality control and processing pipeline for High Throughput Sequencing data.
The difference between HTStream and other tools is that HTStream uses a tab delimited fastq format that allows for streaming from application to application.
This streaming creates some awesome efficiencies when processing HTS data and makes it fully interoperable with other standard Linux tools.
|
2025-01-16 |
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sourmash
|
public |
Compute and compare MinHash signatures for DNA data sets.
|
2025-01-15 |
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delly
|
public |
Structural variant discovery by integrated paired-end and split-read analysis
|
2025-01-15 |
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homer
|
public |
Software for motif discovery and next generation sequencing analysis
|
2025-01-15 |
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ncbi-vdb
|
public |
SRA tools database engine.
|
2025-01-15 |
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muscle
|
public |
Multiple sequence and structure alignment with top benchmark scores scalable to thousands of sequences
|
2025-01-14 |
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pasta
|
public |
An implementation of the PASTA (Practical Alignment using Sate and TrAnsitivity) algorithm
|
2025-01-14 |
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perl-bio-phylo
|
public |
An object-oriented Perl toolkit for analyzing and manipulating phyloinformatic data.
|
2025-01-14 |
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abricate
|
public |
Mass screening of contigs for antibiotic resistance genes
|
2025-01-14 |
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mirdeep2
|
public |
A completely overhauled tool which discovers microRNA genes by analyzing sequenced RNAs
|
2025-01-14 |
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unitas
|
public |
unitas is a convenient tool for efficient annotation of small non-coding RNA sequence datasets produced by Next Generation Sequencing.
|
2025-01-14 |
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ngmlr
|
public |
ngmlr is a long-read mapper designed to align PacBio or Oxford Nanopore reads to a reference genome and optimized for structural variation detection
|
2025-01-14 |
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gffread
|
public |
GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more.
|
2025-01-13 |
|
perl-experimental
|
public |
Experimental features made easy
|
2025-01-09 |
|
bioconductor-pcaexplorer
|
public |
Interactive Visualization of RNA-seq Data Using a Principal Components Approach
|
2025-01-08 |
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perl-config-general
|
public |
Generic Config Module
|
2025-01-08 |
|
selene-sdk
|
public |
Framework for developing sequence-level deep learning networks.
|
2025-01-07 |
|
stacks
|
public |
Stacks is a software pipeline for building loci from short-read sequences.
|
2025-01-07 |
|
megahit
|
public |
MEGAHIT: An ultra-fast single-node solution for large and complex
metagenomics assembly via succinct de Bruijn graph
|
2025-01-07 |
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stringtie
|
public |
StringTie employs efficient algorithms for transcript structure recovery and abundance estimation from bulk RNA-Seq reads aligned to a reference genome.
|
2025-01-07 |
|
bioconductor-variancepartition
|
public |
Quantify and interpret drivers of variation in multilevel gene expression experiments
|
2025-01-06 |
|
bioconductor-ideal
|
public |
Interactive Differential Expression AnaLysis
|
2025-01-06 |
|
bioconductor-isoformswitchanalyzer
|
public |
Identify, Annotate and Visualize Isoform Switches with Functional Consequences from both short- and long-read RNA-seq data
|
2025-01-05 |
|
bioconductor-interest
|
public |
Intron-Exon Retention Estimator
|
2025-01-04 |
|
bioconductor-meshes
|
public |
MeSH Enrichment and Semantic analyses
|
2025-01-04 |
|
bioconductor-rnaseqsamplesize
|
public |
RnaSeqSampleSize
|
2025-01-04 |
|
bioconductor-medips
|
public |
DNA IP-seq data analysis
|
2025-01-04 |
|
bioconductor-clusterprofiler
|
public |
A universal enrichment tool for interpreting omics data
|
2025-01-04 |
|
bioconductor-mineica
|
public |
Analysis of an ICA decomposition obtained on genomics data
|
2025-01-04 |
|
bioconductor-chipseeker
|
public |
ChIPseeker for ChIP peak Annotation, Comparison, and Visualization
|
2025-01-04 |
|
bioconductor-gsreg
|
public |
Gene Set Regulation (GS-Reg)
|
2025-01-04 |
|
bioconductor-genvisr
|
public |
Genomic Visualizations in R
|
2025-01-04 |
|
bioconductor-reactomepa
|
public |
Reactome Pathway Analysis
|
2025-01-04 |
|
bioconductor-seqgsea
|
public |
Gene Set Enrichment Analysis (GSEA) of RNA-Seq Data: integrating differential expression and splicing
|
2025-01-04 |
|
bioconductor-enrichplot
|
public |
Visualization of Functional Enrichment Result
|
2025-01-04 |
|
bioconductor-teqc
|
public |
Quality control for target capture experiments
|
2025-01-03 |
|
bioconductor-rfpred
|
public |
Assign rfPred functional prediction scores to a missense variants list
|
2025-01-03 |
|
bioconductor-tracktables
|
public |
Build IGV tracks and HTML reports
|
2025-01-03 |
|
bioconductor-vegamc
|
public |
VegaMC: A Package Implementing a Variational Piecewise Smooth Model for Identification of Driver Chromosomal Imbalances in Cancer
|
2025-01-03 |
|
bioconductor-riboseqr
|
public |
Analysis of sequencing data from ribosome profiling experiments
|
2025-01-03 |
|
bioconductor-ssviz
|
public |
A small RNA-seq visualizer and analysis toolkit
|
2025-01-03 |
|
bioconductor-signer
|
public |
Empirical Bayesian approach to mutational signature discovery
|
2025-01-03 |
|
bioconductor-cager
|
public |
Analysis of CAGE (Cap Analysis of Gene Expression) sequencing data for precise mapping of transcription start sites and promoterome mining
|
2025-01-03 |
