spycone 0.2.1

A splicing-aware time course network enricher
18 versions - Latest release: over 2 years ago - 1 dependent repositories - 51 downloads last month - 11 stars on GitHub - 1 maintainer

rohittools 0.1.1

Analysis of single-cell Massively Parallel Reporter Assay (MPRA) data
2 versions - Latest release: over 2 years ago - 34 downloads last month - 1 maintainer

perturb-tools 0.3.5

perturb-tools - Analysis Framework for Pooled CRISPR Genome Editing Screens.
24 versions - Latest release: over 2 years ago - 1 dependent package - 1 dependent repositories - 97 downloads last month - 1 stars on GitHub - 2 maintainers

mritaxonomy 1.1.1

MRIGlobal's taxonomy related operators
15 versions - Latest release: over 2 years ago - 35 downloads last month - 0 stars on GitHub - 1 maintainer

protloc-mex1 0.0.24

...
25 versions - Latest release: over 2 years ago - 89 downloads last month - 1 stars on GitHub - 1 maintainer

phyrvm 1.1.0

2 versions - Latest release: over 2 years ago - 49 downloads last month - 1 maintainer

bacterialtyper 0.6.7

Bacterial identification pipeline
10 versions - Latest release: over 2 years ago - 1 dependent repositories - 47 downloads last month - 3 stars on GitHub - 1 maintainer

fuc 0.38.0 💰

Frequently used commands in bioinformatics
39 versions - Latest release: over 2 years ago - 1 dependent package - 2 dependent repositories - 6.31 thousand downloads last month - 59 stars on GitHub - 1 maintainer

annotationcheckerwithstructure 0.1.6

A simple bioinformatics script.
6 versions - Latest release: over 2 years ago - 46 downloads last month - 0 stars on GitHub - 1 maintainer

bwalign 1.7.0

A burrows-wheeler seed and extend aligner
24 versions - Latest release: over 2 years ago - 68 downloads last month - 0 stars on GitHub - 1 maintainer

model2sas 9.0a1

Small angle scattering simulation from 3D models
1 version - Latest release: over 2 years ago - 12 downloads last month - 8 stars on GitHub - 1 maintainer

probe-design 0.2.45

Probe design for FISH by Quentin Verron
63 versions - Latest release: over 2 years ago - 206 downloads last month - 4 stars on GitHub - 1 maintainer

antipasti 1.2

Deep Learning model that predicts the binding affinity of antibodies from their three-dimensional...
3 versions - Latest release: over 2 years ago - 72 downloads last month - 4 stars on GitHub - 1 maintainer

pyiwe 0.0.8

Python wrapper for TNT (Tree analysis using New Technology) implied weighting with clades support
11 versions - Latest release: over 2 years ago - 1 dependent repositories - 21 downloads last month - 2 stars on GitHub - 1 maintainer

hellobc 0.1.0

XuLab package for single-cell RNA-seq data upstream processing.
1 version - Latest release: over 2 years ago - 7 downloads last month - 1 maintainer

gene-synthesis 0.1

gene synthesis design
1 version - Latest release: over 2 years ago - 32 downloads last month - 0 stars on GitHub - 1 maintainer

rnavirhost 1.0.5

RNAVirHost: a machine learning-based method for predicting hosts of RNA viruses through viral gen...
3 versions - Latest release: over 2 years ago - 3 downloads last month - 14 stars on GitHub - 1 maintainer

gibby-motiffinding 0.1

Process genomic data to extract peak sequences and compute PWMs.
1 version - Latest release: over 2 years ago - 12 downloads last month - 1 maintainer

pmprimer 1.0.7

automated design of multiplex PCR primer pairs for diverse templates
7 versions - Latest release: over 2 years ago - 41 downloads last month - 37 stars on GitHub - 1 maintainer

novowrap 1.32

Assembly Plastid Genome
10 versions - Latest release: over 2 years ago - 1 dependent repositories - 49 downloads last month - 15 stars on GitHub - 1 maintainer

Top 8.3% on pypi.org

toolbiox 0.0.46

a biological toolkit for genome assembly, annotation and analysis that we have accumulated from o...
30 versions - Latest release: over 2 years ago - 8 dependent packages - 2 dependent repositories - 202 downloads last month - 1 maintainer

probait 0.1.0

Generate target-enrichment probes from a set of genome assemblies.
1 version - Latest release: over 2 years ago - 35 downloads last month - 0 stars on GitHub - 1 maintainer

dpred 1.0.4

DPRED is a softwares package for HMM domain prediction and validation
13 versions - Latest release: over 2 years ago - 65 downloads last month - 1 maintainer

plasmidhunter 1.4

3 versions - Latest release: over 2 years ago - 32 downloads last month - 1 maintainer

molgen 0.1 removed

A Molecular Generation Framework package
1 version - Latest release: over 2 years ago

affipred 0.1.2

AlphaFold based Functional Impact Prediction of Missense Variations
5 versions - Latest release: over 2 years ago - 54 downloads last month - 1 maintainer

diffpass 0.2.0

Differentiable Pairing using Soft Scores
4 versions - Latest release: over 2 years ago - 12 downloads last month - 11 stars on GitHub - 1 maintainer

scholarsync 0.0.1

The Literature mining and processing utility
14 versions - Latest release: over 2 years ago - 27 downloads last month - 1 maintainer

bioh2m 1.0.3

For precision modeling of human variants in the mouse genome.
4 versions - Latest release: over 2 years ago - 17 downloads last month - 14 stars on GitHub - 1 maintainer

lvpocket 0.2.4

A Protein Binding Pocket Prediction Methods.
2 versions - Latest release: over 2 years ago - 17 downloads last month - 8 stars on GitHub - 1 maintainer

monviso 0.1.5

MoNvIso is a comprehensive software tool designed for the analysis and modeling of protein isofor...
7 versions - Latest release: over 2 years ago - 70 downloads last month - 1 stars on GitHub - 1 maintainer

protkit 0.3.0

A unified toolkit for structural protein engineering.
8 versions - Latest release: over 2 years ago - 17 downloads last month - 41 stars on GitHub - 1 maintainer

prbdes 0.1.2

Probe design originails for FISH by Quentin Verron
3 versions - Latest release: over 2 years ago - 26 downloads last month - 2 stars on GitHub - 1 maintainer

tadrep 0.9.2

TaDRep: Targeted Detection and Reconstruction of Plasmids
4 versions - Latest release: over 2 years ago - 1 dependent repositories - 18 downloads last month - 22 stars on GitHub - 1 maintainer

depp-test 0.4.0

DEPP: Deep Learning Enables Extending Species Trees using Single Genes
19 versions - Latest release: over 2 years ago - 1 dependent repositories - 85 downloads last month - 19 stars on GitHub - 1 maintainer

mutation-profile 0.2.1

A bioinformatics solution to determine SNP flanking sequences and mutation profile
3 versions - Latest release: over 2 years ago - 10 downloads last month - 10 stars on GitHub - 1 maintainer

wgscovplot 1.0.2

Create interactive comparative sequencing coverage plots from virus sequencing data.
8 versions - Latest release: over 2 years ago - 1 dependent repositories - 14 downloads last month - 19 stars on GitHub - 2 maintainers

autocbei 1.8

"autoCBEI.py" can calculate the potential CBEI loci of the target CDSs and perform statistics and...
9 versions - Latest release: over 2 years ago - 1 dependent repositories - 88 downloads last month - 6 stars on GitHub - 1 maintainer

prodigy-cryst 1.0.1

Predicts if a protein complex interface is biological or crystallographic.
2 versions - Latest release: over 2 years ago - 120 downloads last month - 9 stars on GitHub - 1 maintainer

gene-loci-comparison 0.0.4

Create fancy (bokeh) gene locus plots from GenBank files
2 versions - Latest release: over 2 years ago - 1 dependent repositories - 27 downloads last month - 2 stars on GitHub - 1 maintainer

dpks 0.1.5

Data processing package for the analysis of omics data
4 versions - Latest release: over 2 years ago - 49 downloads last month - 15 stars on GitHub - 1 maintainer

seqprocessor 0.1.5

A sequence tool
6 versions - Latest release: over 2 years ago - 11 downloads last month - 1 maintainer

pykegg 0.1.7

Visualizing and analyzing KEGG information in Python
13 versions - Latest release: over 2 years ago - 405 downloads last month - 7 stars on GitHub - 1 maintainer

amgsim 1.0.9

aMGSIM: simulate ancient metagenomes for multiple synthetic communities
26 versions - Latest release: over 2 years ago - 1 dependent repositories - 116 downloads last month - 4 stars on GitHub - 1 maintainer

protein-topmodel 1.0.1

validate molecular structure models
1 version - Latest release: over 2 years ago - 1 dependent package - 1.65 thousand downloads last month - 19 stars on GitHub - 1 maintainer

whiscy 1.2.0

WHISCY is a software that predicts protein-protein interfaces using conservation and structural i...
1 version - Latest release: over 2 years ago - 36 downloads last month - 4 stars on GitHub - 1 maintainer

phynteny 0.1.13

Phynteny: Synteny-based prediction of bacteriophage genes
4 versions - Latest release: over 2 years ago - 1 dependent repositories - 12 downloads last month - 61 stars on GitHub - 1 maintainer

bioviper 0.2.1

Enhancements to Biopython for working with biological data
6 versions - Latest release: over 2 years ago - 42 downloads last month - 7 stars on GitHub - 1 maintainer

pypgatk 0.0.24

Python tools for proteogenomics
21 versions - Latest release: over 2 years ago - 1 dependent repositories - 74 downloads last month - 15 stars on GitHub - 1 maintainer

alphapept 0.5.3

A modular, python-based framework for mass spectrometry.
18 versions - Latest release: over 2 years ago - 144 downloads last month - 192 stars on GitHub - 1 maintainer

ehdnexact 0.1.1

Refines approximate repeat regions identified by ExpansionHunter denovo to exact genomic coordinates
2 versions - Latest release: over 2 years ago - 24 downloads last month - 0 stars on GitHub - 1 maintainer

cmonkey2 1.2.16

cmonkey2 is an implementation of the cmonkey biclustering method in Python
17 versions - Latest release: over 2 years ago - 137 downloads last month - 26 stars on GitHub - 1 maintainer

quantmsio 0.0.3

Convert multiple files into quantms.io format
1 version - Latest release: over 2 years ago - 56 downloads last month - 26 stars on GitHub - 1 maintainer

wanglab 0.1.1

Simple bioinformatic tools
9 versions - Latest release: over 2 years ago - 21 downloads last month - 4 stars on GitHub - 1 maintainer

rnamining 1.0.4

Package to predict potential coding of RNA sequences provided in fasta format
1 version - Latest release: over 2 years ago - 33 downloads last month - 1 maintainer

dms-variants 1.6.0

Analyze deep mutational scanning of barcoded variants.
39 versions - Latest release: over 2 years ago - 1 dependent package - 14 dependent repositories - 341 downloads last month - 8 stars on GitHub - 1 maintainer

memdof 0.1.3

A python package to determine the internal degrees of freedom for a single lipid membrane.
1 version - Latest release: over 2 years ago - 20 downloads last month - 3 stars on GitHub - 1 maintainer

treasureisland 1.1.5

Prediction of Genomic Islands
19 versions - Latest release: over 2 years ago - 1 dependent repositories - 32 downloads last month - 1 stars on GitHub - 1 maintainer

panpiper 1.0.2

Panpiper: snakemake workflow for bacterial isolate analysis
5 versions - Latest release: over 2 years ago - 32 downloads last month - 4 stars on GitHub - 1 maintainer

approximate-cluster-identities 0.1.6

A package to calculate and visualise approximate cluster identities for a large number of short n...
6 versions - Latest release: over 2 years ago - 61 downloads last month - 1 maintainer

plasmidcc 1.0.1

A Centrifuge based plasmid prediction tool
2 versions - Latest release: over 2 years ago - 18 downloads last month - 1 stars on gitlab.com - 3 maintainers

pymol-pub 1.2

Rapid generation of high-quality structure figures for publication with PyMOL-PUB
4 versions - Latest release: over 2 years ago - 80 downloads last month - 97 stars on GitHub - 1 maintainer

flighted 0.1.2

FLIGHTED, a machine learning method for inference of fitness landscapes from high-throughput expe...
3 versions - Latest release: over 2 years ago - 33 downloads last month - 3 stars on GitHub - 1 maintainer

smprecursorprediction 0.0.2

SMPrecursorPrediction
2 versions - Latest release: over 2 years ago - 10 downloads last month - 1 maintainer

sadic 2.0.0

Reimplementation as a python package of the software for Simple Atom Depth Index Calculator (SADIC)
4 versions - Latest release: over 2 years ago - 63 downloads last month - 4 stars on GitHub - 1 maintainer

acppred 0.0.3

Screening anticancer peptide from amino acid sequence data
3 versions - Latest release: over 2 years ago - 56 downloads last month - 3 stars on GitHub - 1 maintainer

rnahyperfold 0.1.0

A library that provides a number of classes and methods designed to facilitate the analysis and v...
1 version - Latest release: over 2 years ago - 69 downloads last month - 1 maintainer

sieveai 0.7.1

SieveAI: An Automated Drug Discovery Pipeline
11 versions - Latest release: over 2 years ago - 43 downloads last month - 1 stars on GitHub - 1 maintainer

condiga 0.2.2

ConDiGA: Contigs directed gene annotation for accurate protein sequence database construction in ...
3 versions - Latest release: over 2 years ago - 14 downloads last month - 7 stars on GitHub - 1 maintainer

stfd 0.0.1

STFD: Series of deep learning-based foundation models for spatial transcriptomic data analysis
1 version - Latest release: over 2 years ago - 21 downloads last month - 1 maintainer

virushostinteractionpredictor 1.0.0

Python tool to predict ecological virus-host infection
3 versions - Latest release: over 2 years ago - 131 downloads last month - 3 stars on GitHub - 2 maintainers

detelpy 0.1.13

Python package of the deTEL translation error detection pipeline from mass-spectrometry data
9 versions - Latest release: over 2 years ago - 92 downloads last month - 115 stars on GitHub - 1 maintainer

gethogs 1.1.1

A tool to infer Hierarchical Orthologous Groups (HOGs) from pairwise orthologs
3 versions - Latest release: over 2 years ago - 1 dependent repositories - 61 downloads last month - 0 stars on GitHub - 1 maintainer

dnctree 1.0.1

Distance-based phylogeny inference using a randomised divide-and-conquer method
4 versions - Latest release: over 2 years ago - 16 downloads last month - 2 stars on GitHub - 1 maintainer

Top 2.2% on pypi.org

cclib 1.8.1

parsers and algorithms for computational chemistry
38 versions - Latest release: over 2 years ago - 20 dependent packages - 41 dependent repositories - 20.3 thousand downloads last month - 431 stars on GitHub - 5 maintainers

gnfish 0.1.0

Suite of Pyhton programs for Gene extraction and Phylogentic Inference
1 version - Latest release: over 2 years ago - 14 downloads last month - 0 stars on GitHub - 1 maintainer

metadatamapping 1.2.2

A python library to fetch metadata from NCBI and MetaSRA for a list of NCBI accessions and data e...
17 versions - Latest release: over 2 years ago - 57 downloads last month - 1 stars on GitHub - 1 maintainer

ezgenesynteny 0.0.5

A python package to quickly get and visualise the gene order/synteny around a target gene from on...
5 versions - Latest release: over 2 years ago - 24 downloads last month - 0 stars on GitHub - 1 maintainer

neosv 0.0.4

Neoantigens from Structural Variations
3 versions - Latest release: over 2 years ago - 32 downloads last month - 1 maintainer

orthoflow 0.3.4

A phylogenomic workflow
4 versions - Latest release: over 2 years ago - 27 downloads last month - 14 stars on GitHub - 1 maintainer

snekmer 1.2.0

A computational pipeline enabling functional annotation using amino acid recoding.
1 version - Latest release: over 2 years ago - 4 downloads last month - 17 stars on GitHub - 2 maintainers

bacpage 2024.3.8

An easy-to-use pipeline for the assembly and analysis of bacterial genomes
3 versions - Latest release: over 2 years ago - 81 downloads last month - 7 stars on GitHub - 1 maintainer

seqslab-report-parser 0.2.4

Atgenomix SeqsLab Report Parser
37 versions - Latest release: over 2 years ago - 149 downloads last month - 1 maintainer

mediqbox-pubmed 0.0.4 removed

A mediqbox component for PubMed query
4 versions - Latest release: over 2 years ago - 379 downloads last month - 1 maintainer

ipr 3.13.0

[ARCHIVED] Python adapter for generating reports uploaded to IPR using the PORI platform
28 versions - Latest release: over 2 years ago - 1 dependent repositories - 54 downloads last month - 6 stars on GitHub - 2 maintainers

orcapy 1.0.1

Tool for predicting the origin of replication on circular bacterial chromosomes
2 versions - Latest release: over 2 years ago - 17 downloads last month - 18 stars on GitHub - 1 maintainer

ncbi-submit 0.8.1

A tool for submitting to NCBI (SRA, BioSample, & GenBank).
13 versions - Latest release: over 2 years ago - 49 downloads last month - 4 stars on GitHub - 1 maintainer

microbecensus-sourceapp 1.1.2

Estimation of average genome size from metagenomic data
3 versions - Latest release: over 2 years ago - 11 downloads last month - 49 stars on GitHub - 1 maintainer

merge-gbk-records 0.2.0

Merge multiple GenBank files using a spacer sequence
4 versions - Latest release: over 2 years ago - 65 downloads last month - 6 stars on GitHub - 1 maintainer

funannotate 1.8.17

funannotate: eukaryotic genome annotation pipeline
14 versions - Latest release: over 2 years ago - 1 dependent repositories - 71 downloads last month - 401 stars on GitHub - 1 maintainer

ifpd2q 1.0.4

An iFISH probe design pipeline (II)
5 versions - Latest release: over 2 years ago - 2 dependent packages - 86 downloads last month - 0 stars on GitHub - 1 maintainer

hgvstofasta 0.4.2

HGVStoFASTA: HGVS missense variants to FASTA format converter (for nucleotide and aminoacid varia...
8 versions - Latest release: over 2 years ago - 31 downloads last month - 2 stars on GitHub - 1 maintainer

curare 0.6.0

Curare: A Customizable and Reproducible Analysis Pipeline for RNA-Seq Experiments
6 versions - Latest release: over 2 years ago - 1 dependent repositories - 107 downloads last month - 9 stars on GitHub - 1 maintainer

soothsayer 2024.2.27

High-level package for (bio-)informatics
34 versions - Latest release: over 2 years ago - 1 dependent repositories - 88 downloads last month - 11 stars on GitHub - 1 maintainer

cobra-meta 1.2.3

COBRA (Contig Overlap Based Re-Assembly) is a bioinformatics tool to get higher quality viral gen...
4 versions - Latest release: over 2 years ago - 88 downloads last month - 85 stars on GitHub - 1 maintainer

pbj-tools 0.1.5 removed

Python package used to interact with phage.db
2 versions - Latest release: over 2 years ago - 39 downloads last month - 1 maintainer

modelestimator-v2 2.1.4

Program for estimating amino acid replacement rates
9 versions - Latest release: over 2 years ago - 1 dependent repositories - 20 downloads last month - 0 stars on GitHub - 2 maintainers

Top 8.7% on pypi.org

insilicoseq 2.0.1

a sequencing simulator
39 versions - Latest release: over 2 years ago - 4 dependent repositories - 1.67 thousand downloads last month - 227 stars on GitHub - 1 maintainer

localpdb 0.2.9

11 versions - Latest release: over 2 years ago - 2 dependent repositories - 2.5 thousand downloads last month - 1 maintainer

circulocov 0.1.20240104

Circular-Aware Coverage for Draft Genomes
1 version - Latest release: over 2 years ago - 12 downloads last month - 8 stars on GitHub - 1 maintainer

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Registry	pypi.org
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Docs	Documentation
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PURL	pkg:pypi/biopython spec
License	Other
First Release	about 11 years ago
Last Synced	14 minutes ago

Stars	5,250 on GitHub
Forks	1,984 on GitHub
Docker Dependents	408
Docker Downloads	32,873,459
Commits	15524
Committers	483
Avg per Author	32.141
DDS	0.613