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augustus
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public |
AUGUSTUS is a gene prediction program for eukaryotes written by Mario Stanke and Oliver Keller. It can be used as an ab initio program, which means it bases its prediction purely on the sequence. AUGUSTUS may also incorporate hints on the gene structure coming from extrinsic sources such as EST, MS/MS, protein alignments and synthenic genomic alignments.
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2025-08-20 |
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perl-bio-phylo
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public |
An object-oriented Perl toolkit for analyzing and manipulating phyloinformatic data.
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2025-08-20 |
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paraphase
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public |
HiFi-based caller for highly homologous genes
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2025-08-20 |
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perl-bio-bigfile
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public |
Low-level interface to BigWig & BigBed files
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2025-08-20 |
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perl-bio-db-hts
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public |
Read files using HTSlib including BAM/CRAM, Tabix and BCF database files
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2025-08-20 |
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bioconductor-singlecelltk
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public |
Comprehensive and Interactive Analysis of Single Cell RNA-Seq Data
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2025-08-20 |
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hmnfusion
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public |
Fusion analysis from DNA genomics.
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2025-08-20 |
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paml
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public |
A package of programs for phylogenetic analyses of DNA or protein sequences using maximum likelihood.
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2025-08-20 |
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sepp
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public |
SATe-enabled phylogenetic placement.
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2025-08-20 |
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bioconductor-dupradar
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public |
Assessment of duplication rates in RNA-Seq datasets
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2025-08-20 |
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hail
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public |
Hail is Python-based data analysis tool for working with genomic data.
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2025-08-20 |
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jvarkit-bamstats04
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public |
Coverage statistics for a BED file.
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2025-08-20 |
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macsylib
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public |
MacSyLib: Python library that help to detect of macromolecular, systems genetic pathways… in prokaryotes protein datasets using systems modelling and similarity search.
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2025-08-20 |
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hi-corrector
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public |
Remove biases from chromatin contact matrices generated by genome-wide proximity ligation assays, e.g. Hi-C and its variant TCC
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2025-08-20 |
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ushuffle
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public |
uShuffle---a useful tool for shuffling biological sequences while preserving the k-let counts
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2025-08-20 |
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perl-bio-procedural
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public |
Simple low-dependency procedural interfaces to BioPerl
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2025-08-20 |
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gargammel
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public |
Tool for simulating ancient DNA datasets.
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2025-08-19 |
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samblaster
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public |
Mark duplicates in and extract discordant and split reads from SAM files.
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2025-08-19 |
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perl-inline-c
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public |
C Language Support for Inline.
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2025-08-19 |
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lumpy-sv-minimal
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public |
A general probabilistic framework for structural variant discovery. This package contains only the lumpy executable
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2025-08-19 |
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dxpy
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public |
DNAnexus Platform API bindings for Python
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2025-08-19 |
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nanoplot
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public |
Plotting suite for long read sequencing data and alignments.
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2025-08-19 |
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medaka
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public |
A tool to create consensus sequences and variant calls from nanopore sequencing data using neural networks.
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2025-08-19 |
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fastq-tools
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public |
A collection of fastq manipulation scripts written in C for speed.
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2025-08-19 |
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reditools3
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public |
REDItools3 is an RNA editing detection tool implemented in Python3 for analyzing RNA-seq data.
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2025-08-19 |
