441 Open source projects that are alternatives of or similar to conda-env-builder

Official code repository for GATK versions 4 and up

JavaScript VisualizationTools

Universal Transcript Archive: comprehensive genome-transcript alignments; multiple transcript sources, versions, and alignment methods; available as a docker image

Genomics data visualization in Python by using matplotlib.

Exact Tandem Repeat Finder (not a TRF replacement)

Core BioPerl 1.x code

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

Read and write FASTQ and FASTA efficiently from Python

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

Strelka2 germline and somatic small variant caller

A fast 23andMe genome text file parser, now superseded by arv

Randomly subsample sequencing reads to a specified coverage

Quickly search, compare, and analyze genomic and metagenomic data sets.

Seven Bridges API Client, CWL Schema, Meta Schema, and SDK Helper in R

Fast hash function for DNA sequences

A versatile pairwise aligner for genomic and spliced nucleotide sequences

Examples of using deep learning in Bioinformatics

UNCURL is a tool for single cell RNA-seq data analysis.

Highly customizable, ambiguity-aware dotplots for visual sequence analyses

A full spaCy pipeline and models for scientific/biomedical documents.

Analytical Web Apps for Python, R, Julia, and Jupyter. No JavaScript Required.

🐣 locally query the ncbi taxonomy

Bioinformatics pipeline for SARS-CoV-2 sequencing at CZ Biohub

Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model

🔬 Assemble large genomes using short reads

Efficient variant-call data storage and retrieval library using the TileDB storage library.

Guidelines for using IvLabs PC. General instructions for maintaining and using any PC/laptop while using Ubuntu for Robotics/DL/RL research.

Fast & accurate alignment of barcoded short-reads

React component for Cytoscape.js network visualisations

(No maintenance) Detect gene fusion directly from raw fastq files

Simple pure Python SAM parser and objects for working with SAM records

JAMP - Just Another Metabarcoding Pipeline

A curated list of resources for learning bioinformatics.

an implementation of NSGA-II in java

Antimicrobial Resistance Identification By Assembly

Data and analysis for the Splatter paper

Proof-of-concept seq-to-graph mapper and graph generator

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

A Kotlin DSL and library to create and plot RNA 2D structures

Data intensive science for everyone.

Intuitive local web frontend for the BLAST bioinformatics tool

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

Examples using Clustergrammer2 to explore high-dimensional datasets.

A plotly.js React component from Plotly 📈

Python package for graph neural networks in chemistry and biology

Python and C++ code for reading and writing genomics data.

Open source Java library for computational proteomics

A cross-platform and ultrafast toolkit for FASTA/Q file manipulation in Golang

RAxML Next Generation: faster, easier-to-use and more flexible

A cross-platform, efficient and practical CSV/TSV toolkit in Golang

Stacked Denoising AutoEncoder based on TensorFlow

A workflow to build models of the European electricity system for Calliope.

✏️ A versatile DNA sequence optimizer

A DSL for data-driven computational pipelines

karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome

𝙋𝙝𝙮𝙡𝙤𝙜𝙚𝙣𝙚𝙩𝙞𝙘 𝘾𝙤𝙢𝙥𝙤𝙣𝙚𝙣𝙩 𝙂𝙧𝙖𝙥𝙝 ⸺ Haskell program and libraries for general phylogenetic graph search

No description or website provided.

Project metadata manager for PEPs in Python

Automated statistical and functional fine-mapping pipeline with extensive API access to datasets.

SIMD-accelerated library for computing global and X-drop affine gap penalty sequence-to-sequence or sequence-to-profile alignments using an adaptive block-based algorithm.