☯️🧬 Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs
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Updated
May 7, 2024 - Python
☯️🧬 Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs
(Meta-)genome screening for functional and natural product gene sequences
🚦🧬 Binning Metagenomic Contigs via Composition, Coverage and Assembly Graphs
✨🧬 Refined binning of metagenomic contigs using assembly graphs
Scalable long read self-correction and assembly polishing with multiple sequence alignment
Wally: Visualization of aligned sequencing reads and contigs
DEPRECATED: Discover divergent virus sequences, prune flanking cellular sequences, make basic report
🔎 💊 Mass screening of contigs for antimicrobial and virulence genes
Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.
A comprehensive workflow for de novo assembly of whole-genome shotgun sequencing data using Velvet, followed by BLAST searches to analyze assembled contigs.
Split a multifasta file into many fasta files containing a single sequence, or extract a list of sequences/contigs. Supports compressed input and output files.
Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.
Genome assembly evaluation tool
Toolkit for binning FASTA, FASTQ and FAST5 files according to taxonomic annotation
Small and simple scripts useful for various bioinformatics purposes e.g. extract sequences from fasta files
An ensemble of plasmid classification tools
Take information about snps on short sequence reads and accurately place the snps in a reference genome
hierarchical clustering of DNA sequence using upcxx
This pipeline is intended to be a convenient way to work though large sets of metagenomic or metatranscriptiomic datasets while also retaining high analytical flexibility due to retained intermediate results that might be useful outside of the intended purpose.
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