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Search results for bioinformatics bacteria
bacteria
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bioinformatics
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24 search results found
Snippy
⭐
408
✂️ ⚡ Rapid haploid variant calling and core genome alignment
Gtdbtk
⭐
383
GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.
Bakta
⭐
365
Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
Ppanggolin
⭐
191
Build a partitioned pangenome graph from microbial genomes
Chewbbaca
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113
BSR-Based Allele Calling Algorithm
Platon
⭐
93
Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.
Pangraph
⭐
72
A bioinformatic toolkit to align genome assemblies into pangenome graphs
Bigsdb
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53
Bacterial Isolate Genome Sequence Database (BIGSdb): A platform for gene-by-gene bacterial population annotation and analysis.
Asap
⭐
46
A scalable bacterial genome assembly, annotation and analysis pipeline
Prophyle
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30
Accurate, resource-frugal and deterministic DNA sequence classifier.
Vigen
⭐
24
viGEN - A bioinformatics pipeline for the exploration of viral RNA in human NGS data
Socru
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23
Order and orientation of complete bacterial genomes
Pathogentrack
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22
A pipeline to identify pathogenic microorganisms from scRNA-seq raw data.
Mof Search
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18
BLAST-like search across all pre-2019 bacteria on ordinary laptop and desktop computers within a few hours
Bactpipe
⭐
17
BACTpipe: An assembly and annotation pipeline for bacterial genomics
Rmap
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15
Bacterial analysis Toolbox for profiling the Resistome of ESKAPE pathogens using WGS
Awesome Phages
⭐
14
A curated list of phage related software and computational resources for phage scientists, bioinformaticians and enthusiasts.
Phastaf
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14
Identify phage regions in bacterial genomes for masking purposes
Tome
⭐
9
A machine learning model for the prediction of optimal growth temperature of microorganisms and enzyme catalytic optima
Db.rna16s
⭐
8
A comprehensive, compact, and automatically curated 16S database
Miniphy
⭐
7
Phylogenetic compression of extremely large genome collections [661k ↘𝟏𝟕.𝟓𝐆𝐁, BIGSIdata ↘𝟓𝟐 𝐆𝐁]
Mikrokondo
⭐
6
A simple pipeline for bacterial assembly and quality control
Prfect
⭐
5
Software to predict the occurence of programmed ribosomal frameshifting in bacterial, phage, and viral genomes
Decontaminer
⭐
5
DecontaMiner is a tool designed and developed to investigate the presence of contaminating sequences in unmapped NGS data. It can suggest the presence of contaminating organisms in sequenced samples, that might derive either from laboratory contamination or from their biological source, and in both cases can be considered as worthy of further investigation and experimental validation. The novelty of DecontaMiner is mainly represented by its easy integration with the standard procedures of NGS da
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1-24 of 24 search results
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