A package for fast genomic sequences manipulation or interrogation
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Updated
May 16, 2021 - C++
A package for fast genomic sequences manipulation or interrogation
get chloroplast and mitochondrial genes from contigs of genome-skimming or transcriptome data
Coverage Of COntigs Alignment
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.
Software to identify known plasmid sequence from metagenomic assembly using Minhash
A comprehensive workflow for de novo assembly of whole-genome shotgun sequencing data using Velvet, followed by BLAST searches to analyze assembled contigs.
hierarchical clustering of DNA sequence using upcxx
Visualize read-to-contig alignment during assembly analysis
Sequencing of unculturable plant pathogens
Compare and shuffle heterozygosity using BED and VCF files
Genome assembly - From theory to practice (and back)
Refining Domain Boundaries and Performing Large Scale Parsing
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.
Take information about snps on short sequence reads and accurately place the snps in a reference genome
Toolkit for binning FASTA, FASTQ and FAST5 files according to taxonomic annotation
DEPRECATED: Discover divergent virus sequences, prune flanking cellular sequences, make basic report
☯️🧬 Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs
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