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piscem
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public |
piscem is a next-generation compacted colored de Bruijn Graph-based indexer and mapper
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2025-01-24 |
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bakta
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public |
Rapid & standardized annotation of bacterial genomes, MAGs & plasmids.
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2025-01-24 |
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pyopenms
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public |
python bindings for OpenMS, an open-source software C++ library for LC-MS data management and analyses
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2025-01-24 |
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cat
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public |
CAT/BAT: tool for taxonomic classification of contigs and metagenome-assembled genomes (MAGs)
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2025-01-24 |
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viroconstrictor
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public |
ViroConstrictor is a flexible pipeline for analysis of targeted viral sequencing data
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2025-01-24 |
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varfish-cli
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public |
Command line interface to VarFish via REST API
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2025-01-24 |
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nanomotif
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public |
Identifying methlyation motifs in nanopore data
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2025-01-24 |
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transannot
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public |
TransAnnot: a fast transcriptome annotation pipeline.
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2025-01-24 |
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amdirt
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public |
amdirt: AncientMetagenomeDir Toolkit
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2025-01-24 |
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autobigs-engine
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public |
A library to rapidly fetch fetch MLST profiles given sequences for various diseases.
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2025-01-24 |
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nafcodec
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public |
PyO3 bindings and Python interface to nafcodec, an encoder/decoder for Nucleotide Archive Format (NAF) files.
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2025-01-24 |
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bali-phy
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public |
Phylogenetics - Bayesian estimation of phylogenies and multiple sequence alignments.
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2025-01-24 |
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gw
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public |
View genomic sequencing data and vcf files
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2025-01-24 |
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pybwa
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public |
Pybwa is a python module that makes it easy to align sequence data. It is a lightweight wrapper of bwa.
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2025-01-24 |
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mavenn
|
public |
MAVE-NN: genotype-phenotype maps from multiplex assays of variant effect.
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2025-01-24 |
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oakvar
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public |
OakVar - Genomic Variant Analysis Platform
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2025-01-24 |
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seqerakit
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public |
Automate creation of Seqera Platform resources
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2025-01-24 |
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fastqsplitter
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public |
Splits FASTQ files evenly.
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2025-01-24 |
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kma
|
public |
KMA is a mapping method designed to map raw reads directly against redundant databases, in an ultra-fast manner using seed and extend.
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2025-01-24 |
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bioconda-repodata-patches
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public |
generate tweaks to index metadata, hosted separately from anaconda.org index
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2025-01-24 |
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quatradis
|
public |
A set of tools to analyse the output from TraDIS analyses
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2025-01-23 |
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rnastructure
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public |
RNAstructure is a complete package for RNA and DNA secondary structure prediction and analysis. It includes algorithms for secondary structure prediction, including facility to predict base pairing probabilities. It also can be used to predict bimolecular structures and can predict the equilibrium binding affinity of an oligonucleotide to a structured RNA target. This is useful for siRNA design. It can also predict secondary structures common to two, unaligned sequences, which is much more accurate than single sequence secondary structure prediction. Finally, RNAstructure can take a number of different types of experiment mapping data to constrain or restrain structure prediction. These include chemical mapping, enzymatic mapping, NMR, and SHAPE data.
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2025-01-23 |
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parsnp
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public |
Parsnp is a command-line-tool for efficient microbial core genome alignment and SNP detection.
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2025-01-23 |
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snakemake-executor-plugin-slurm
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public |
A Snakemake executor plugin for submitting jobs to a SLURM cluster.
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2025-01-23 |
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pydamage
|
public |
Damage parameter estimation for ancient DNA.
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2025-01-23 |
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pybiolib
|
public |
BioLib Python Client
|
2025-01-23 |
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perl-math-bigint
|
public |
Arbitrary size floating point math package
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2025-01-23 |
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ncbi-stxtyper
|
public |
StxTyper identifies and types Stx operons from assembled genomic sequence.
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2025-01-23 |
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primerforge
|
public |
primerForge: software to identify primers that can be used to distinguish genomes.
|
2025-01-23 |
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gaftools
|
public |
gaftools is a fast and comprehensive toolkit designed for processing pangenome alignments in GAF format
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2025-01-23 |
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artic
|
public |
ARTIC pipeline - a bioinformatics pipeline for working with virus sequencing data sequenced with nanopore.
|
2025-01-23 |
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marti
|
public |
Metagenomic Analysis in Real Time
|
2025-01-23 |
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resistify
|
public |
A resistance gene annotation tool.
|
2025-01-23 |
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openms
|
public |
OpenMS is an open-source software C++ library for LC-MS data management and analyses
|
2025-01-23 |
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libopenms
|
public |
OpenMS is an open-source software C++ library for LC-MS data management and analyses
|
2025-01-23 |
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openms-thirdparty
|
public |
OpenMS is an open-source software C++ library for LC-MS data management and analyses
|
2025-01-23 |
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perl-string-diff
|
public |
Simple diff to String
|
2025-01-23 |
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spaln
|
public |
Map and align a set of cDNA/EST or protein sequences onto a genome
|
2025-01-23 |
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longstitch
|
public |
A genome assembly correction and scaffolding pipeline using long reads
|
2025-01-23 |
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khmer
|
public |
khmer k-mer counting library
|
2025-01-23 |
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aviary
|
public |
End-to-end metagenomics hybrid assembly and binning pipeline.
|
2025-01-22 |
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excludonfinder
|
public |
A tool for identifying and analyzing excludons in genomic data using RNA-seq data.
|
2025-01-22 |
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itsxpress
|
public |
ITSxpress: Software to rapidly trim the Internally Transcribed Spacer (ITS) region from FASTQ files.
|
2025-01-22 |
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ectyper
|
public |
ECtyper is a python program for serotyping E. coli genomes
|
2025-01-22 |
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multiqc
|
public |
Create aggregate bioinformatics analysis reports across many samples and tools.
|
2025-01-22 |
|
auspice
|
public |
Auspice is an open-source interactive tool for visualising phylogenomic data
|
2025-01-22 |
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grampa
|
public |
GRAMPA is a program to identify and place polyploidy events on a phylogeny and to count duplications and losses in the presence of polyploidy.
|
2025-01-22 |
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cmat
|
public |
ClinVar Mapping and Annotation Toolkit
|
2025-01-22 |
|
metacerberus-lite
|
public |
MetaCerberus with reduced dependencies: Versatile Functional Ontology Assignments for Metagenomes via Hidden Markov Model (HMM) searching with environmental focus of shotgun meta'omics data
|
2025-01-22 |
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metacerberus
|
public |
Versatile Functional Ontology Assignments for Metagenomes via Hidden Markov Model (HMM) searching with environmental focus of shotgun meta'omics data
|
2025-01-22 |
