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bamtools
|
public |
C++ API & command-line toolkit for working with BAM data
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2024-12-13 |
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gffcompare
|
public |
GffCompare by Geo Pertea
|
2024-12-12 |
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bowtie2
|
public |
A fast and sensitive gapped read aligner.
|
2024-12-12 |
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mentalist
|
public |
The MLST pipeline developed by the PathOGiST research group.
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2024-12-11 |
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rmblast
|
public |
RMBlast is a RepeatMasker compatible version of the standard NCBI BLAST+ suite.
|
2024-12-05 |
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hicexplorer
|
public |
Set of programs to process, analyze and visualize Hi-C and capture Hi-C data
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2024-11-28 |
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svtopovz
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public |
Complex structural variant visualization for HiFi sequencing data: plotting tool.
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2024-11-19 |
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altamisa
|
public |
Alternative Python API for accessing ISA-tab files.
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2024-10-28 |
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snippy
|
public |
Rapid bacterial SNP calling and core genome alignments
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2024-10-24 |
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treetime
|
public |
Maximum-Likelihood dating and ancestral inference for phylogenetic trees
|
2024-08-11 |
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genomelake
|
public |
Simple and efficient random access to genomic data for deep learning models.
|
2024-06-12 |
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genometools-genometools
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public |
GenomeTools genome analysis system.
|
2024-06-12 |
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peakachu
|
public |
Peak calling tool for CLIP-seq data.
|
2024-06-11 |
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scanpy-scripts
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public |
Scripts for using scanpy from the command line
|
2024-02-21 |
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gunc
|
public |
Python package for detection of chimerism and contamination in prokaryotic genomes.
|
2023-11-24 |
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flair
|
public |
Correction, isoform definition, and alternative splicing analysis of noisy reads (ONT and PacBio).
|
2023-07-16 |
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dipcall
|
public |
Dipcall is a reference-based variant calling pipeline for a pair of phased haplotype assemblies.
|
2023-06-16 |
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nanocompore
|
public |
Nanocompore identifies raw signal changes between two conditions dRNA-Seq data.
|
2023-06-16 |
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openduck
|
public |
Open source library for dynamic undocking (DUck)
|
2023-06-16 |
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grid
|
public |
Growth Rate Index (GRiD) measures bacterial growth rate from reference genomes (including draft quality genomes) and metagenomic bins at ultra-low sequencing coverage (> 0.2x).
|
2023-06-16 |
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libarbdb
|
public |
ARB 6 Sequence Analysis Suite
|
2023-06-16 |
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arb-bio-tools
|
public |
ARB 6 Sequence Analysis Suite
|
2023-06-16 |
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arb-bio-devel
|
public |
ARB 6 Sequence Analysis Suite
|
2023-06-16 |
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perl-math-random-mt-auto
|
public |
Auto-seeded Mersenne Twister PRNGs
|
2023-06-16 |
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perl-package-stash-xs
|
public |
faster and more correct implementation of the Package::Stash API
|
2023-06-16 |
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perl-storable
|
public |
persistence for Perl data structures
|
2023-06-16 |
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logol
|
public |
Logol is a pattern matching grammar language and a set of tools to search a pattern in a sequence (nucleic or proteic)
|
2023-06-16 |
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r-biclust
|
public |
The main function biclust provides several algorithms to find biclusters in two-dimensional data: Cheng and Church, Spectral, Plaid Model, Xmotifs and Bimax. In addition, the package provides methods for data preprocessing (normalization and discretisation), visualisation, and validation of bicluster solutions.
|
2023-06-16 |
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perl-mime-base64
|
public |
The RFC 2045 encodings; base64 and quoted-printable
|
2023-06-16 |
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genomicconsensus
|
public |
No Summary
|
2023-06-16 |
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perl-class-load-xs
|
public |
XS implementation of parts of Class::Load
|
2023-06-16 |
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perl-perlio-utf8_strict
|
public |
Fast and correct UTF-8 IO
|
2023-06-16 |
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blasr
|
public |
No Summary
|
2023-06-16 |
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r-ggthemes
|
public |
Some extra themes, geoms, and scales for ggplot2. Provides ggplot2 themes and scales that replicate the look of plots by Edward Tufte, Stephen Few, Fivethirtyeight, The Economist, Stata, Excel, and The Wall Street Journal, among others. Provides geoms for Tufte s box plot and range frame.
|
2023-06-16 |
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arb-bio
|
public |
ARB 6 Sequence Analysis Suite
|
2023-06-16 |
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perl-variable-magic
|
public |
Associate user-defined magic to variables from Perl.
|
2023-06-16 |
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fastaindex
|
public |
No Summary
|
2023-06-16 |
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nspdk
|
public |
No Summary
|
2023-06-16 |
|
sed
|
public |
sed (stream editor)
|
2023-06-16 |
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r-fdrtool
|
public |
Estimates both tail area-based false discovery rates (Fdr) as well as local false discovery rates (fdr) for a variety of null models (p-values, z-scores, correlation coefficients, t-scores). The proportion of null values and the parameters of the null distribution are adaptively estimated from the data. In addition, the package contains functions for non-parametric density estimation (Grenander estimator), for monotone regression (isotonic regression and antitonic regression with weights), for computing the greatest convex minorant (GCM) and the least concave majorant (LCM), for the half-normal and correlation distributions, and for computing empirical higher criticism (HC) scores and the corresponding decision threshold.
|
2023-06-16 |
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perl-module-build-tiny
|
public |
A tiny replacement for Module::Build
|
2023-06-16 |
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circos
|
public |
Circos is a software package for visualizing data and information. It visualizes data in a circular layout
|
2023-06-16 |
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perl-text-soundex
|
public |
Implementation of the soundex algorithm.
|
2023-06-16 |
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gawk
|
public |
GNU awk
|
2023-06-16 |
|
poretools
|
public |
poretools: a toolkit for working with nanopore sequencing data from Oxford Nanopore
|
2023-06-16 |
|
libmagic
|
public |
Implementation of the file(1) command
|
2023-06-16 |
|
ruamel.yaml
|
public |
A YAML package for Python. It is a derivative of Kirill Simonov's PyYAML 3.11 which supports YAML1.1
|
2023-06-16 |
|
fastqc
|
public |
A quality control tool for high throughput sequence data.
|
2023-06-16 |
|
trimmomatic
|
public |
A flexible read trimming tool for Illumina NGS data
|
2023-06-16 |
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perl-encode-locale
|
public |
Determine the locale encoding
|
2023-06-16 |
