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iced
|
public |
The python module iced implements the ICE normalization of hic data.
|
2025-06-03 |
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transit
|
public |
TRANSIT
|
2025-06-02 |
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freebayes
|
public |
Bayesian haplotype-based polymorphism discovery and genotyping.
|
2025-06-02 |
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bioconductor-dirichletmultinomial
|
public |
Dirichlet-Multinomial Mixture Model Machine Learning for Microbiome Data
|
2025-06-02 |
|
bioconductor-decipher
|
public |
Tools for curating, analyzing, and manipulating biological sequences
|
2025-05-29 |
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rsem
|
public |
RSEM is a software package for estimating gene and isoform expression levels from RNA-Seq data.
|
2025-05-29 |
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evidencemodeler
|
public |
Evidence Modeler combines ab intio gene predictions, protein alignments, and transcript alignments into weighted consensus gene structures
|
2025-05-29 |
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beagle-lib
|
public |
general purpose library for evaluating the likelihood of sequence evolution on trees
|
2025-05-29 |
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rtg-tools
|
public |
RealTimeGenomics Tools -- Utilities for accurate VCF comparison and manipulation.
|
2025-05-29 |
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entrez-direct
|
public |
Entrez Direct (EDirect) is an advanced method for accessing the NCBI's set of interconnected databases (publication, sequence, structure, gene, variation, expression, etc.) from a UNIX terminal window. Functions take search terms from command-line arguments. Individual operations are combined to build multi-step queries. Record retrieval and formatting normally complete the process.
|
2025-05-28 |
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mcl
|
public |
MCL - a cluster algorithm for graphs
|
2025-05-28 |
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r-sleuth
|
public |
Tools for investigating RNA-Seq.
|
2025-05-28 |
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metabat2
|
public |
Metagenome binning.
|
2025-05-28 |
|
arvados-python-client
|
public |
Python API for Arvados
|
2025-05-28 |
|
cutadapt
|
public |
Trim adapters from high-throughput sequencing reads
|
2025-05-28 |
|
salmon
|
public |
Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
|
2025-05-28 |
|
smallgenomeutilities
|
public |
A collection of scripts that are useful for dealing with viral RNA NGS data.
|
2025-05-28 |
|
kat
|
public |
KAT is a suite of tools that analyse jellyfish hashes or sequence files (fasta or fastq) using kmer counts
|
2025-05-27 |
|
deepvariant
|
public |
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
|
2025-05-24 |
|
perl-devel-size
|
public |
Perl extension for finding the memory usage of Perl variables
|
2025-05-24 |
|
shortstack
|
public |
ShortStack: Comprehensive annotation and quantification of small RNA genes
|
2025-05-24 |
|
pyseer
|
public |
Sequence Element Enrichment Analysis (SEER), python implementation.
|
2025-05-22 |
|
ucsc-cell-browser
|
public |
A browser for single-cell data, main site at http://cells.ucsc.edu. UCSC Cellbrowser, an interactive browser for single cell data. Includes importers and basic pipelines for text files, Seurat, Scanpy and Cellranger. All Javascript - does not require a server backend.
|
2025-05-22 |
|
meme
|
public |
Motif-based sequence analysis tools.
|
2025-05-20 |
|
vcflib
|
public |
Command-line tools for manipulating VCF files.
|
2025-05-19 |
