pypi.org "microbiology" keyword
View the packages on the pypi.org package registry that are tagged with the "microbiology" keyword.
pioreactor 25.7.2
The core Python app of the Pioreactor. Control your bioreactor through Python.115 versions - Latest release: 29 days ago - 1 dependent repositories - 498 downloads last month - 97 stars on GitHub - 1 maintainer
phylotoast 1.3.0
Tools for phylogenetic data analysis including visualization and cluster-computing support.1 version - Latest release: over 9 years ago - 2 dependent repositories - 17 downloads last month - 14 stars on GitHub - 1 maintainer
subtil 0.1.0
Subgroup discovery platform for examination of Bacterial TIme-Lapse microscopy dataset1 version - Latest release: about 7 years ago - 1 dependent repositories - 15 downloads last month - 1 stars on GitHub - 1 maintainer
binette 1.1.2
Binette: accurate binning refinement tool to constructs high quality MAGs.11 versions - Latest release: about 1 month ago - 100 downloads last month - 35 stars on GitHub - 1 maintainer
referenceseeker 1.8.0
ReferenceSeeker: rapid determination of appropriate reference genomes.12 versions - Latest release: over 3 years ago - 1 dependent repositories - 52 downloads last month - 98 stars on GitHub - 1 maintainer
biobakery-workflows 0.15.1
bioBakery workflows: A collection of meta'omic analysis workflows25 versions - Latest release: about 5 years ago - 68 downloads last month - 1 maintainer
parathaa 1.0.0
PARATHAA: Preserving and Assimilating Region-specific Ambiguities in Taxonomic Hierarchical Assig...4 versions - Latest release: 3 days ago - 25 downloads last month - 3 stars on GitHub - 1 maintainer
calcfu 1.0.1
This package contains the CalCFU and Plate class for automatically calculating CFU counts under t...2 versions - Latest release: about 3 years ago - 1 dependent repositories - 14 downloads last month - 0 stars on GitHub - 1 maintainer
amr 3.0.0
A Python wrapper for the AMR R package151 versions - Latest release: about 2 months ago - 2.26 thousand downloads last month - 99 stars on GitHub - 1 maintainer
humann2 2.8.2
HUMAnN2: The HMP Unified Metabolic Analysis Network 225 versions - Latest release: over 5 years ago - 6 dependent repositories - 60 downloads last month - 1 maintainer
genbank-to 0.42
Convert GenBank format files to a swath of other formats7 versions - Latest release: over 3 years ago - 1 dependent repositories - 39 downloads last month - 18 stars on GitHub - 1 maintainer
micrompn 1.0.1
MicroMPN: Software to estimate Most Probable Number (MPN) bacterial abundance from microplates.2 versions - Latest release: about 2 years ago - 15 downloads last month - 1 stars on GitHub - 1 maintainer
spirepy 0.1.0
A SPIRE wrapper and command-line tool for interacting with global microbiome data.1 version - Latest release: about 1 month ago - 154 downloads last month - 0 stars on GitHub - 1 maintainer
friend-or-foe 1.0.0
A collection of microbial datasets obtained from metabolic modeling for machine learning research1 version - Latest release: 5 days ago - 0 stars on GitHub - 1 maintainer
fugassem 0.3.8
FUGAsseM: Function predictor of Uncharacterized Gene products by Assessing high-dimensional commu...3 versions - Latest release: 4 months ago - 33 downloads last month - 4 stars on GitHub - 1 maintainer
silvio 0.2.11
silvio is an environment for Simulation of Virtual Organisms. silvio contains several linked micr...16 versions - Latest release: 6 months ago - 1 dependent repositories - 299 downloads last month - 1 maintainer
mgkit 0.5.8
Metagenomics Framework30 versions - Latest release: almost 4 years ago - 2 dependent repositories - 70 downloads last month - 17 stars on GitHub - 1 maintainer
commscores 0.0.10
A Python package for quantifying microbial interactions5 versions - Latest release: almost 2 years ago - 12 downloads last month - 0 stars on GitHub - 1 maintainer
pybarrnap 0.5.1
Python implementation of barrnap (Bacterial ribosomal RNA predictor)8 versions - Latest release: 6 months ago - 63 downloads last month - 21 stars on GitHub - 1 maintainer
bayesian-mpn-calculator 0.1.0
A package to calculate Most Probable Number (MPN) using Bayesian inference.1 version - Latest release: 12 months ago - 21 downloads last month - 1 maintainer
baqlava 0.5
BAQLaVa: Bioinformatic Application of Quantification and Labeling of Viral Taxonomy (BAQLaVa).1 version - Latest release: 6 months ago - 35 downloads last month - 6 stars on GitHub - 1 maintainer
lpsn 1.0.0
LPSN-API - Programmatic Access to LPSN3 versions - Latest release: over 1 year ago - 1 dependent repositories - 124 downloads last month - 787 stars on GitHub - 1 maintainer
phispy 4.2.21
Prophage finder using multiple metrics31 versions - Latest release: over 3 years ago - 1 dependent repositories - 54 downloads last month - 78 stars on GitHub - 1 maintainer
sphae 1.5.2
Phage workflow16 versions - Latest release: about 1 month ago - 305 downloads last month - 23 stars on GitHub - 1 maintainer
anvio 2.4.0
An interactive analysis and visualization platform for 'omics data. See https://merenlab.org/proj...29 versions - Latest release: about 8 years ago - 2 dependent repositories - 60 downloads last month - 1 maintainer
bacdive 1.0.0
BacDive-API - Programmatic Access to the BacDive Database6 versions - Latest release: over 1 year ago - 1 dependent package - 1 dependent repositories - 303 downloads last month - 2 maintainers
waafle 1.1.0
WAAFLE: a Workflow to Annotate Assemblies and Find LGT Events4 versions - Latest release: 10 months ago - 1 dependent repositories - 25 downloads last month - 17 stars on GitHub - 1 maintainer
p-tree 0.1.16
A program for counting CFUs in petri dishes11 versions - Latest release: over 7 years ago - 1 dependent repositories - 72 downloads last month - 0 stars on GitHub - 1 maintainer
microbecensus 1.2.2
A command-line tool for estimating average genome size from shotgun sequence data8 versions - Latest release: almost 2 years ago - 1 dependent repositories - 21 downloads last month - 46 stars on GitHub - 1 maintainer
kaptive 3.1.0
In silico serotyping5 versions - Latest release: 4 months ago - 238 downloads last month - 8 stars on GitHub - 1 maintainer
Top 8.0% on pypi.org
4 versions - Latest release: about 10 years ago - 8 dependent repositories - 88 downloads last month - 1 maintainer
qiime 1.9.1
Quantitative Insights Into Microbial Ecology4 versions - Latest release: about 10 years ago - 8 dependent repositories - 88 downloads last month - 1 maintainer
pyctv-taxonomy 0.25
Download ICTV Virus Classifications as Python Objects1 version - Latest release: over 2 years ago - 6 downloads last month - 2 stars on GitHub - 1 maintainer
tunacell 0.2.2
Analysis of Timeseries from dividing UNicellular microorganisms6 versions - Latest release: almost 6 years ago - 1 dependent repositories - 22 downloads last month - 1 stars on GitHub - 1 maintainer
humann 3.6.1
HUMAnN: The HMP Unified Metabolic Analysis Network, version 316 versions - Latest release: over 2 years ago - 1 dependent repositories - 406 downloads last month - 1 maintainer
grpredict 25.6.1
Estimate growth curves using an Extended Kalman Filter1 version - Latest release: 2 months ago - 501 downloads last month - 0 stars on GitHub - 1 maintainer
phageboost 0.1.7
a Fast Prophage and Phage Predictor5 versions - Latest release: over 4 years ago - 1 dependent repositories - 57 downloads last month - 37 stars on GitHub - 1 maintainer
ppanggolin 2.2.4
Pangenome analysis suite3 versions - Latest release: 25 days ago - 232 downloads last month - 271 stars on GitHub - 4 maintainers
cb-platon 1.4.0
Platon: identification and characterization of bacterial plasmid contigs from short-read draft as...10 versions - Latest release: about 5 years ago - 1 dependent repositories - 65 downloads last month - 116 stars on GitHub - 1 maintainer
pygenomeviz 1.6.1
A genome visualization python package for comparative genomics34 versions - Latest release: 3 months ago - 1 dependent package - 1 dependent repositories - 1.12 thousand downloads last month - 330 stars on GitHub - 1 maintainer
curveball 0.2.16
Predicting competition results from growth curves4 versions - Latest release: over 3 years ago - 2 dependent repositories - 144 downloads last month - 14 stars on GitHub - 1 maintainer
grna-create 0.0.2
A tool to create gRNAs2 versions - Latest release: over 3 years ago - 1 dependent repositories - 20 downloads last month - 1 stars on GitHub - 1 maintainer
mobspy 2.7.0
A Query-Based Language for Chemical Reaction Networks32 versions - Latest release: about 2 months ago - 1 dependent repositories - 186 downloads last month - 21 stars on GitHub - 3 maintainers
qiime-tools 1.1.2
Useful additions to the QIIME analysis pipeline including tools for data visualization and cluste...3 versions - Latest release: almost 11 years ago - 3 dependent repositories - 26 downloads last month - 14 stars on GitHub - 1 maintainer
plasmidcanvas 1.0.0
A graphics package for creating customised plasmid maps2 versions - Latest release: over 1 year ago - 19 downloads last month - 1 stars on GitHub - 2 maintainers
shortbred 0.9.5
ShortBRED: a system for profiling protein families of interest at very high specificity in shotgu...1 version - Latest release: about 5 years ago - 1 dependent repositories - 8 downloads last month - 1 maintainer
drep 3.6.2
De-replication of microbial genomes assembled from multiple samples65 versions - Latest release: 4 months ago - 1 dependent repositories - 258 downloads last month - 290 stars on GitHub - 1 maintainer
cocopye 0.5.0
Feature-based prediction of genome quality indices12 versions - Latest release: about 1 year ago - 61 downloads last month - 2 stars on GitHub - 1 maintainer
mlstclassifier_cd 0.4.3
multi-locus sequence type clade classifier for C.difficile8 versions - Latest release: about 1 year ago - 24 downloads last month - 0 stars on GitHub - 1 maintainer
metawibele 0.4.8
MetaWIBELE: Workflow to Identify novel Bioactive Elements in microbiome11 versions - Latest release: 12 months ago - 1 dependent repositories - 30 downloads last month - 21 stars on GitHub - 1 maintainer
kneaddata 0.12.3
16 versions - Latest release: about 1 month ago - 1 dependent repositories - 171 downloads last month - 1 maintainer
Related Keywords
bioinformatics
32
microbiome
13
microbial
10
metagenomic
10
bacteria
9
python
8
genomics
8
metagenomics
8
metatranscriptomic
7
microbial-genomics
5
anadama2
5
biology
5
genome
5
phage
4
visualization
4
ngs
3
assembly
3
wgs
3
computational-biology
3
qiime
3
humann
3
microbiome-analysis
2
pbs
2
phylogenetics
2
slurm
2
baqlava
2
tools
2
Bioinformatics
2
Prokaryote
2
hpc
2
cross-platform
2
16s
2
16S
2
microbial ecology
2
biobakery
2
QIIME
2
science
2
gff
2
plasmids
2
genbank
2
evolution
2
prophage
2
comparative-genomics
2
machine-learning
2
Refinement
1
cross-correlations
1
data-analysis
1
time-series-analysis
1
kalman filter
1
growth rate
1
optical density
1
machine learning
1
Pangenomics
1
pipeline
1
sequencing
1
bam
1
SNP
1
SNV
1
strains
1
phenotypes
1
waafle
1
petri
1
colony
1
engineering
1
lab
1
labs
1
MicrobeCensus
1
ecology
1
serotyping
1
virus
1
microscopy
1
time-lapse
1
cell-division
1
analysis
1
statistics
1
dynamics
1
plasmid
1
plasmidmap
1
map
1
microbiology-publication
1
shortbred
1
microbial-genomes
1
genome quality
1
clade
1
classifier
1
mlst
1
multi-locus-sequence-typing
1
tool
1
gene catalog
1
bioactive
1
metawibele
1
archived
1
public
1
kneaddata
1
Comparative genomics
1
pangenome
1
contigs
1
matplotlib
1
genomics-visualization
1
gff3
1