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22 search results found

Taxprofiler ⭐ 78

Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data

Toolkit for calling structural variants using short or long reads

Yet Another Chimeric Read Detector

Metacache ⭐ 49

memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping

Minimap2 Rs ⭐ 46

Rust bindings to minimap2 library

Close assembly gaps using long-reads at high accuracy.

A versatile compressor of third generation sequencing reads.

Swan_vis ⭐ 43

A Python library to visualize and analyze long-read transcriptomes

ClairS - a deep-learning method for long-read somatic small variant calling

A fast tool for hybrid genome assembly of long and short reads

Lordfast ⭐ 31

Sensitive and Fast Alignment Search Tool for Long Read sequencing Data.

Tandem repeat expansion detection or genotyping from long-read alignments

Order and orientation of complete bacterial genomes

Gssplayground ⭐ 21

Lightweight single-html-file-based Genome Segments playground for Visualize genome features cluster(gene arrow map or other features), add synteny among genome fragments or add crosslink among features, add short(PE/MP)/long reads(pacbio or nanopore) mapping or snpindel in vcf(not support complex sv yet), support all CIGAR of sam alignment, directly modify almost all features in Chrome by click the feature

Minimizer-based assembly scaffolding and mapping using long reads

Predict plasmids from uncorrected long read data

Rustyread ⭐ 20

A long read simulator based on badread idea

Clairs To ⭐ 18

ClairS-TO - a deep-learning method for tumor-only somatic SNV calling

Alternative polyadenylation detection from diverse data sources such as 3'-seq, long-read and short-reads.

Svcollector ⭐ 17

Method to optimally select samples for validation and resequencing

A long-read analysis toolbox for cancer and population genomics

Fast and space-efficient taxonomic classification of long reads

Edgecase ⭐ 13

A framework for extracting telomeric reads from single-molecule sequencing experiments, describing their sequence variation and motifs, and for haplotype inference.

Clair3 Trio ⭐ 12

Clair3-Trio: variant calling in trio using Nanopore long-reads

Trackcluster ⭐ 9

An analysis pipeline for Nanopore direct-RNA sequencing

Derives consensus sequences from a set of long noisy reads by clustering and error correction.

Project Diploid Assembly ⭐ 8

Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data

Svjedi Graph ⭐ 5

SV genotyper for long reads with a variation graph

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