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rukki
|
public |
Extracting paths from assembly graphs.
|
2025-03-25 |
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minimizers
|
public |
Minimizers extraction from fasta files.
|
2025-03-25 |
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dbghaplo
|
public |
Haplotyping small sequences from heterogeneous long-read sequencing samples with a SNP-encoded positional de Bruijn Graph.
|
2025-03-25 |
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spreadgltools
|
public |
Visualising pathogen dispersal in a high-performance browser application
|
2025-03-25 |
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sizemeup
|
public |
A simple tool to determine the genome size of an organism
|
2025-03-25 |
|
pgrc
|
public |
A tool for compressing the DNA stream of FASTQ datasets.
|
2025-03-25 |
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consensify
|
public |
A method for generating a consensus pseudohaploid genome sequence
|
2025-03-25 |
|
moni
|
public |
A Pangenomics Index for Finding MEMs
|
2025-03-25 |
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mview
|
public |
MView extracts and reformats the results of a sequence database search or multiple alignment.
|
2025-03-25 |
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hsdecipher
|
public |
Pipeline for the downstream analysis of highly similar duplicate genes
|
2025-03-25 |
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hsdfinder
|
public |
a tool to predict highly similar duplicates (HSDs) in eukaryotes
|
2025-03-25 |
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msisensor-rna
|
public |
MSIsensor-RNA: Microsatellite instability detection using RNA sequencing data.
|
2025-03-25 |
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eukfinder
|
public |
Eukfinder is a tool for detecting eukaryotic sequences in metagenomic data.
|
2025-03-25 |
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busco_phylogenomics
|
public |
Utility script to construct species phylogenies using BUSCO proteins.
|
2025-03-25 |
|
scarches
|
public |
Transfer learning with Architecture Surgery on Single-cell data
|
2025-03-25 |
|
tiberius
|
public |
Tiberius is a programme for quantifying and analysing genetic sequence data.
|
2025-03-25 |
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seq-hasher
|
public |
Compute hash digests for DNA sequences in a FASTA file, with support for circular permutations
|
2025-03-25 |
|
tr-trimmer
|
public |
Identify and trim terminal repeats from sequences in FASTA files
|
2025-03-25 |
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gbintk
|
public |
GraphBin-Tk: assembly graph-based metagenomic binning toolkit
|
2025-03-25 |
|
hylight
|
public |
Strain aware assembly of low coverage metagenomes.
|
2025-03-25 |
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transanno
|
public |
accurate VCF/GFF3/GTF LiftOver tool for new genome assemblies
|
2025-03-25 |
|
hackgap
|
public |
hackgap (hash-based counting of k-mers with gaps) provides a fast jit-compiled k-kmer counter which supports gapped k-mers.
|
2025-03-25 |
|
afpdb
|
public |
A Numpy-based PDB structure manipulation package
|
2025-03-25 |
|
dockq
|
public |
A Quality Measure for Protein, Nucleic Acids and Small Ligand Docking Modelsc
|
2025-03-25 |
|
sam2pairwise
|
public |
sam2pairwise takes a SAM file and uses the CIGAR and MD tag to reconstruct the pairwise alignment of each read
|
2025-03-25 |
|
schpl
|
public |
Hierarchical progressive learning pipeline for single-cell RNA-sequencing datasets
|
2025-03-25 |
|
quota_anchor
|
public |
Strand and WGD aware syntenic gene identification
|
2025-03-25 |
|
pod5
|
public |
Oxford Nanopore Technologies Pod5 File Format Python API and Tools.
|
2025-03-25 |
|
lib-pod5
|
public |
Python bindings for the POD5 file format.
|
2025-03-25 |
|
strainy
|
public |
Assembly-based metagenomic strain phasing using long reads
|
2025-03-25 |
|
piawka
|
public |
The powerful AWK script to calculate population statistics in VCF files with support for varying ploidy and missing data
|
2025-03-25 |
|
orthologer
|
public |
Establish orthology among fasta files.
|
2025-03-25 |
|
poplddecay
|
public |
PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format (VCF) files.
|
2025-03-25 |
|
kegalign-full
|
public |
KegAlign: A Scalable GPU-Based Whole Genome Aligner
|
2025-03-25 |
|
pango-collapse
|
public |
Collapse Pango sublineages up to user defined parent lineages.
|
2025-03-25 |
|
blast2galaxy
|
public |
A Python package with a CLI and API to perform BLAST queries against Galaxy servers
|
2025-03-25 |
|
r-mams
|
public |
R package for Matrix and Analysis Metadata Standards.
|
2025-03-25 |
|
jclusterfunk
|
public |
A command line tool with a bunch of functions for trees
|
2025-03-25 |
|
spatialleiden
|
public |
Implementation of multiplex Leiden for analysis of spatial omics data.
|
2025-03-25 |
|
pling
|
public |
Pling computes the rearrangement distance between plasmids and clusters on their basis
|
2025-03-25 |
|
bwa-aln-interactive
|
public |
Version of the BWA aln read mapper for interactive alignment.
|
2025-03-25 |
|
tribal
|
public |
TRIBAL is a package to infer B cell lineage trees from single-cell RNA sequencing data.
|
2025-03-25 |
|
popoolation2
|
public |
PoPoolation2 allows to compare allele frequencies for SNPs between two or more populations and to identify significant differences.
|
2025-03-25 |
|
biobox_add_taxid
|
public |
CAMI amber utility script for adding the taxid output from GTDB and BAT
|
2025-03-25 |
|
prymer
|
public |
Python Primer Design Library
|
2025-03-25 |
|
snakemake-executor-plugin-tes
|
public |
A Snakemake executor plugin for submitting jobs to a GA4GH TES cluster.
|
2025-03-25 |
|
r-buencolors
|
public |
R utility package for color mapping and plot aesthetics.
|
2025-03-25 |
|
mquad
|
public |
MQuad: Mixture Model for Mitochondrial Mutation detection in single-cell omics data.
|
2025-03-25 |
|
bbmix
|
public |
BBMix: inference of beta-binomial mixture model
|
2025-03-25 |
|
miniprot-boundary-scorer
|
public |
Miniprot boundary scorer parses introns, starts, stops and exons from miniprot's alignment output and scores them
|
2025-03-25 |
