Awesome Open Source

Programming Languages

Search results for python bioconda

61 search results found

Multiqc ⭐ 1,159

Aggregate results from bioinformatics analyses across many samples into a single report.

Orthofinder ⭐ 547

Phylogenetic orthology inference for comparative genomics

Sniffles ⭐ 479

Structural variation caller using third generation sequencing

Genomepy ⭐ 355

genes and genomes at your fingertips

Bioconvert ⭐ 344

Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.

Fit data to many distributions

Cellrank ⭐ 279

CellRank: dynamics from multi-view single-cell data

Python package with helper tools for the nf-core community.

Pyrodigal ⭐ 111

Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!

Run_dbcan ⭐ 109

Run_dbcan V4, using genomes/metagenomes/proteomes of any assembled organisms (prokaryotes, fungi, plants, animals, viruses) to search for CAZymes.

Instrain ⭐ 104

Bioinformatics program inStrain

Anndata2ri ⭐ 104

Convert between AnnData and SingleCellExperiment

Bioconda Utils ⭐ 95

Utilities for building and managing bioconda recipes

Assorted tools for interacting with .gct, .gctx files and other Connectivity Map (Broad Institute) data/tools

Antibiotic resistance prediction in minutes

Ega Download Client ⭐ 83

A Python-based EGA download client

Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.

Characterization of Germline variants

Single-Cell Clustering Assessment Framework

Fluff is a Python package that contains several scripts to produce pretty, publication-quality figures for next-generation sequencing experiments.

Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture assays such as Hi-C.

Chanjo provides a better way to analyze coverage data in clinical sequencing.

MutMap pipeline to identify causative mutations responsible for a phenotype

Deep Learning based cell composition analysis with Scaden.

Bioinformatics in Python

Ploidy agnostic phasing pipeline and algorithm

A python package and a set of shell commands to handle GTF files

Ribocode ⭐ 28

release version

Forward-time simulation in Python using fwdpp

Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.

miRge - microRNA alignment software for small RNA-seq data, now at v2.0

Hypercluster ⭐ 20

🎇 SCelVis - web-based visualization of single-cell data. ➡️ ➡️ Demo ➡️➡️

Dreamtools ⭐ 17

Code sharing related to DREAM challenges

Surpyvor ⭐ 17

A python wrapper around SURVIVOR

Plasmidtron ⭐ 16

Assembling the cause of phenotypes and genotypes from NGS data

SMN1 copy-number and sequence variant analysis from next generation sequencing data

Diet networks in TensorFlow

A robust model for quantitative comparison of ChIP-Seq data sets.

Cocoscore ⭐ 14

CoCoScore: context-aware co-occurrence scores for text mining applications

My pipeline and code collections for NGS data analysis, such as RNA-seq, ChIP-seq, MNase-seq, Hi-C, Trac-looping and etc, mainly keep the analysis within Python.

Set of tools for viral metagenomics.

Flexible omics pipeline

Scaffold_builder ⭐ 12

Combining de novo and reference-guided assembly with Scaffold_builder

Library for indexing VCF files for random access searches by rsID

Convert_zero_one_based ⭐ 11

Python CLI to convert between zero and one based genomic coordinate systems

Simple matching of HTS samples based on HLA typing

Neptune: Genomic Signature Discovery

Star Seqr ⭐ 9

RNA Fusion Detection and Quantification

Parser to get meta information from mzML file and parse relevant information to a ISA-Tab structure

Gedmatch Tools ⭐ 8

Tools and Python API for GEDMatch Genesis (https://genesis.gedmatch.com)

Bcbio Conda ⭐ 7

Deprecated conda recipes for bcbio python code and dependencies -- migrated to bioconda

Mzml2isa Galaxy ⭐ 7

mzml2isa for galaxy

Bioconda Primedrpa ⭐ 7

Tangle Resolution ⭐ 6

Python package for processing direct-infusion mass spectrometry-based metabolomics and lipidomics data

Quasitools ⭐ 6

Quasitools is a collection of tools for analysing viral quasispecies data.

Pyomeroupload ⭐ 5

Project for uploading local file structure into OMERO database

FOCUS: An Agile Profiler for Metagenomic Data

Protgraph ⭐ 5

ProtGraph - A Graph-Generator for Proteins

Related Searches

Python Dataset (14,792)

Python Docker (14,113)

Python Machine Learning (14,099)

Python Deep Learning (13,092)

Python Jupyter Notebook (12,976)

Python Testing (9,346)

Python Pandas (6,193)

Python C Plus Plus (6,054)

Python Search (5,981)

Python Data Science (4,679)

1-61 of 61 search results

Privacy | About | Terms | Follow Us On Twitter

Copyright 2018-2024 Awesome Open Source. All rights reserved.