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rmblast
|
public |
RMBlast is a RepeatMasker compatible version of the standard NCBI BLAST+ suite.
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2024-12-05 |
|
sistr_cmd
|
public |
Salmonella In Silico Typing Resource (SISTR) commandline tool for serovar prediction
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2024-12-05 |
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pplacer
|
public |
Pplacer places query sequences on a fixed reference phylogenetic tree to maximize phylogenetic likelihood or posterior probability according to a reference alignment.
|
2024-12-05 |
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busco
|
public |
Assessment of assembly completeness using Universal Single Copy Orthologs.
|
2024-12-05 |
|
perl-bio-samtools
|
public |
Read SAM/BAM files
|
2024-12-05 |
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mosdepth
|
public |
Fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing.
|
2024-12-05 |
|
star-fusion
|
public |
STAR-Fusion fusion variant caller. All dependencies required to run FusionInspector and FusionAnnotator are included.
|
2024-12-05 |
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mustang
|
public |
Mustang is a program that implements an algorithm for structural alignment of multiple protein structures.
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2024-12-04 |
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mashmap
|
public |
A fast approximate aligner for long DNA sequences.
|
2024-12-04 |
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alignlib-lite
|
public |
Simple wrapper around alignlib C++ library for sequence alignment
|
2024-12-04 |
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fastp
|
public |
A ultra-fast FASTQ preprocessor with full features (QC/adapters/trimming/filtering/splitting...)
|
2024-12-02 |
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gubbins
|
public |
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins.
|
2024-12-02 |
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graphaligner
|
public |
Sequence to graph aligner for long reads
|
2024-12-02 |
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baitfisher
|
public |
No Summary
|
2024-12-02 |
|
jalview
|
public |
Jalview is a free program for multiple sequence alignment editing, visualisation, analysis and figure generation.
|
2024-11-29 |
|
hicexplorer
|
public |
Set of programs to process, analyze and visualize Hi-C and capture Hi-C data
|
2024-11-28 |
|
strelka
|
public |
Strelka calls somatic and germline small variants from mapped sequencing reads
|
2024-11-28 |
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repeatmodeler
|
public |
RepeatModeler is a de-novo repeat family identification and modeling package.
|
2024-11-28 |
|
arvados-python-client
|
public |
Python API for Arvados
|
2024-11-26 |
|
damidseq_pipeline
|
public |
An automated pipeline for processing DamID sequencing datasets.
|
2024-11-25 |
|
hmftools-purple
|
public |
PURPLE is a purity ploidy estimator for tumor samples.
|
2024-11-25 |
|
hmftools-amber
|
public |
Generates a tumor BAF file for use in PURPLE.
|
2024-11-21 |
|
hmftools-cobalt
|
public |
Calculate read-depth counts and GC ratios to use in PURPLE.
|
2024-11-21 |
|
biobb_model
|
public |
Biobb_model is the Biobb module collection to check and model 3d structures, create mutations or reconstruct missing atoms.
|
2024-11-20 |
|
cnvkit
|
public |
Copy number variant detection from high-throughput sequencing.
|
2024-11-18 |
|
beagle
|
public |
Beagle is a software package for phasing genotypes and for imputing ungenotyped markers.
|
2024-11-14 |
|
teloclip
|
public |
A tool for the recovery of unassembled telomeres from soft-clipped read alignments.
|
2024-11-13 |
|
bioblend
|
public |
A Python library for interacting with the Galaxy API.
|
2024-11-07 |
|
perl-ole-storage_lite
|
public |
Read and write OLE storage files.
|
2024-11-05 |
|
tinscan
|
public |
Find alignment signatures characteristic of transposon insertion sites.
|
2024-11-05 |
|
mimeo
|
public |
Scan genomes for internally repeated sequences, elements which are repetitive in another species, or high-identity HGT candidate regions between species.
|
2024-11-04 |
|
seqkit
|
public |
a cross-platform and ultrafast toolkit for FASTA/Q file manipulation
|
2024-11-03 |
|
taxonkit
|
public |
A Cross-platform and Efficient NCBI Taxonomy Toolkit
|
2024-11-02 |
|
csvtk
|
public |
A cross-platform, efficient, practical CSV/TSV toolkit
|
2024-11-02 |
|
fgbio
|
public |
A set of tools for working with genomic and high throughput sequencing data, including UMIs
|
2024-11-02 |
|
tirmite
|
public |
Map TIR-pHMM models to genomic sequences for annotation of MITES and complete DNA-Transposons.
|
2024-10-31 |
|
gatk4
|
public |
Genome Analysis Toolkit (GATK4)
|
2024-10-31 |
|
pbsv
|
public |
pbsv - PacBio structural variant (SV) calling and analysis tools
|
2024-10-29 |
|
kaptive
|
public |
Reports information about surface polysaccharide loci for Klebsiella pneumoniae species complex and Acinetobacter baumannii genome assemblies.
|
2024-10-28 |
|
lima
|
public |
lima - The PacBio Barcode Demultiplexer
|
2024-10-28 |
|
masurca
|
public |
MaSuRCA (Maryland Super-Read Celera Assembler) genome assembly software. MaSuRCA requires Illumina data, and supports third-generation PacBio/Nanopore MinION reads for hybrid assembly.
|
2024-10-28 |
|
shortstack
|
public |
ShortStack: Comprehensive annotation and quantification of small RNA genes
|
2024-10-28 |
|
nanoqc
|
public |
Create fastQC-like plots for Oxford Nanopore sequencing data.
|
2024-10-28 |
|
fastqe
|
public |
A emoji based bioinformatics command line tool.
|
2024-10-25 |
|
augustus
|
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.
|
2024-10-24 |
|
snippy
|
public |
Rapid bacterial SNP calling and core genome alignments
|
2024-10-24 |
|
trim-galore
|
public |
Trim Galore! is a wrapper script to automate quality and adapter trimming as well as quality control
|
2024-10-22 |
|
perl-excel-writer-xlsx
|
public |
Create a new file in the Excel 2007+ XLSX format.
|
2024-10-22 |
|
sevenbridges-python
|
public |
SBG API python client bindings
|
2024-10-19 |
|
pyteomics
|
public |
A framework for proteomics data analysis.
|
2024-10-18 |
