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Search results for python genetics
genetics
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python
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53 search results found
Hail
⭐
905
Cloud-native genomic dataframes and batch computing
Platypus
⭐
524
A Free and Open Source Python Library for Multiobjective Optimization
Cellrank
⭐
279
CellRank: dynamics from multi-view single-cell data
Intermine
⭐
228
A powerful open source data warehouse system
Sgkit
⭐
194
Statistical genetics toolkit
Msprime
⭐
161
Simulate genealogical trees and genomic sequence data using population genetic models
Lineage
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114
tools for genetic genealogy and the analysis of consumer DNA test results
Osgenome
⭐
90
An Open Source Web Application for Genetic Data (SNPs) using 23AndMe and Data Crawling Technologies
Cmappy
⭐
86
Assorted tools for interacting with .gct, .gctx files and other Connectivity Map (Broad Institute) data/tools
Cutevariant
⭐
85
A standalone and free application to explore genetics variations from VCF file
Xpclr
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64
Code to compute the XP-CLR statistic to infer natural selection
Trifusion
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61
Streamlining phylogenomic data gathering, processing and visualization
Gor
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37
GORpipe is a tool based on a genomic ordered relational architecture and allows analysis of large sets of genomic and phenotypic tabular data using declarative query language, in a parallel execution engine.
Sc2rf
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34
SARS-Cov-2 Recombinant Finder for fasta sequences
Genetic Trait Detector
⭐
30
This python script detects known traits in raw human genetic data.
Locuszoom Standalone
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30
Create regional association plots from GWAS or meta-analysis
Pairsnp
⭐
29
A set of scripts for calculating pairwise SNP distance
Orthoevolution
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28
An easy to use and comprehensive python package which aids in the analysis and visualization of orthologous genes. 🐵
Epistasis
⭐
28
A Python API for estimating statistical high-order epistasis in genotype-phenotype maps.
Darjeeling
⭐
27
Language-independent, search-based program repair -- just your cup of tea! ☕
Genipe
⭐
26
Genome-wide imputation pipeline
Fwdpy11
⭐
25
Forward-time simulation in Python using fwdpp
Structure_threader
⭐
24
A wrapper program to parallelize and automate runs of "Structure", "fastStructure" and "MavericK".
Gnomad_db
⭐
23
This package scales the huge gnomAD files to a SQLite database, which is easy and fast to query. It extracts from a gnomAD vcf the minor allele frequency for each variant.
Pgltools
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23
Paired Genomic Loci Tool Suite
Autopvs1
⭐
23
An automatic classification tool for PVS1 interpretation of null variants
Iliad
⭐
21
ILIAD: A suite of automated Snakemake workflows for processing genomic data for downstream applications
Kegg Crawler
⭐
18
A parallel API crawler for the retrieval of Kyoto Encyclopedia of Genes and Genomes metabolic and genomics data.
Genoml2
⭐
17
GenoML (genoml2) is an open source Python package. It is an automated machine learning (autoML) platform for genomics data
Phaenotyp
⭐
17
Phänotyp allows to perform genetic mutation of architectural structures. Furthermore it can be used to analyze moving shapes. This is especially useful when working on kinematic architectural projects. The tool is focusing on early stages of the design process and can be used for free without any warranty. If you want to participate in the project please get in contact via:
Genetics
⭐
16
Genetics (Initialization, Selection, Crossover, Mutation)
Manhattan_generator
⭐
15
Manhattan plot Generator
Hase
⭐
14
Framework for efficient high-dimensional association analyses.
Pyplink
⭐
14
Python module to read binary Plink files.
Chatgpt For Genetics
⭐
13
Chat with Open Targets genetics database leveraging text-to-graphQL capabilities of OpenAI Codex.
Gentropy
⭐
13
Open Targets python framework for post-GWAS analysis
Region Plot
⭐
12
A tool to plot significant regions of GWAS
Pygenetic
⭐
12
A multi-purpose genetic algorithm written in python
Timesweeper
⭐
12
Python package for detecting positive selective sweeps using time-series genomics sampling data.
Sushie
⭐
11
Software to perform multi-ancestry SNP fine-mapping on molecular data
Hat
⭐
10
HAT is a set of tools for calling de novo variants from whole-genome sequencing data.
Genetictree
⭐
10
Constructing decision trees with genetic algorithm with a scikit-learn inspired API
Tostadas
⭐
10
🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission
Sequence Database Curator
⭐
10
This program dereplicates and/or filter nucleotide and/or protein database from a list of names or sequences (by exact match).
Gpmap
⭐
10
A Python API for managing genotype-phenotype map data
Algebra
⭐
10
A Boolean Algebra for Genetic Variants
Open Genes Api
⭐
9
Open Genes API provides access to research data collected for the genes associated with aging
Variantconvert
⭐
9
A customizable genetic variants file format converter.
Allelefrequencies
⭐
9
📂 HLA allele frequencies in tab-delimited format, downloaded from AFND.
Macie
⭐
8
Multi-dimensional Annotation Class Integrative Estimation
Nhc
⭐
7
NHC: A computational approach to detect physiological homogeneity in the midst of genetic heterogeneity
Msp
⭐
7
Genetic and our algorithm for Multiprocessor Scheduling Problem
Labrat
⭐
7
A basic science lab framework aimed at reproducibility and lab management.
Uorganisms
⭐
7
Python micro:organisms on the BBC micro:bit
Genome To Sqlite
⭐
6
Import your genome into a SQLite database
Banding Pattern Extraction
⭐
6
Banding pattern extraction, and banding pattern segmentation mask generation for stained banded chromosome images.
Aces
⭐
5
ACES is a workflow to query small sequences in a large set of genomes. It provides several outputs including BLAST results, a multiple sequence alignment file, a graphical fragment assembly file, and a phylogenetic tree file.
Vase
⭐
5
Variant Annotation, Segregation and Exclusion for family or cohort based rare-disease sequencing studies.
Recimap
⭐
5
Recimap (a reciprocal mapping tool) was developed as a bioinformatics command-line tool/pipeline to find rearrangements breakpoints between two closely related genomes.
Bphunter
⭐
5
Genome-wide detection of human variants that disrupt intronic branchpoints
Pdvcf
⭐
5
Allows one to manipulate a VCF as a MultiIndex Pandas DataFrame
Metadome
⭐
5
MetaDome is aimed at professionals in the (bio-)medical field of human genetics who wish to visualize the position of their mutation of interest in the context of general population-based genetic variation and provide detailed information of pathogenic variants found across homologous domain positions.
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