170 Open source projects that are alternatives of or similar to alignment-nf

A handy variant calling pipeline generator for whole genome re-sequencing (WGS) and whole exom sequencing data (WES) analysis. 一个简易且全面的 WGS/WES 分析流程生成器.

Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform

Exome/Capture/RNASeq Pipeline Implementation using snakemake

Metagenomics/viromics pipeline that focuses on automation, user-friendliness and a clear audit trail. Jovian aims to empower classical biologists and wet-lab personnel to do metagenomics/viromics analyses themselves, without bioinformatics expertise.

Basecalling, alignment, assembly and deconvolution of Sanger Chromatogram trace files

Learning the Variant Call Format

MTCNN implement by tensorflow. Easy to training and testing.

Rare variant test software for next generation sequencing data

Needleman-Wunsch and Smith-Waterman algorithms in python

Python package for extracting and analyzing image representations from state-of-the-art neural networks for computer vision

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

An automated RNA-seq pipeline using Nextflow

A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies

A course on Analysing Next Generation (/High Throughput etc..) Sequencing data using Bioconductor

The Modular Aligner and The Modular SV Caller

A workflow for creating small NGS test data sets, useful for continuous integration.

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A custom layout object based on flow layout. Added supports for horizontal, vertical alignment and RTL direction of collection view items.(available for both UICollectionView and NSCollectionView)

Utilities for analyzing next generation sequencing data.

Customizable workflows based on snakemake and python for the analysis of NGS data

Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data

myVCF: a web-based platform for target and exome mutations data management

Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data

Deep neural network for the alignment of GC-MS peaks

RNA-seq workflow using STAR and DESeq2

NGLess: NGS with less work

BACTpipe: An assembly and annotation pipeline for bacterial genomics

Multi-sample somatic variant caller

Collection of scripts for bacterial genomics

🐳 Bio-dockers: dockerized bioinformatic tools

RNF framework for NGS: simulation of reads, evaluation of mappers, conversion of RNF-compliant data.

Ultrafast sequence typing and gene detection from NGS raw reads

Callable Cancer Loci - assessment of sequencing coverage for actionable and pathogenic loci in cancer

Faster BWA-MEM2 using learned-index

An easy-to-use way for running Galaxy workflows.

Helpful components for aligning and keeping virtual objects aligned with the physical world.

uLTRA is a long-read splice aligner with high accuracy from using a guiding annotation

Detect novel (and reference) STR expansions from short-read data

Mapping-based Genome Size Estimation (MGSE) performs an estimation of a genome size based on a read mapping to an existing genome sequence assembly.

Consensus calling (or "reference assisted assembly"), chiefly of ancient mitochondria

Recentrifuge: robust comparative analysis and contamination removal for metagenomics

Calculation of pairwise Linkage Disequilibrium (LD) under a probabilistic framework

Indigo: SNV and InDel Discovery in Chromatogram traces obtained from Sanger sequencing of PCR products

My bioinfo toolbox

A Java API for high-throughput sequencing data (HTS) formats.

Nightlight: Astronomic Image Processing

A collection of Galaxy-related training material

Docker for 4DN Hi-C processing pipeline

Tools for working with genomic and high throughput sequencing data.

Flexible Algorithms for Image Registration

R package for analyzing single-cell RNA-seq data

A method for circular DNA detection based on probabilistic mapping of ultrashort reads

A library for manipulating bioinformatics sequencing formats in Apache Spark

UGENE is free open-source cross-platform bioinformatics software

Facial Landmark Detection based on PyTorch

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

A scalable bacterial genome assembly, annotation and analysis pipeline

Nanopore demultiplexing, QC and alignment pipeline

Framework to process and call somatic variation from NGS dataset generated using MSK-IMPACT assay

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