denovo-assembly
There are 39 repositories under denovo-assembly topic.
chhylp123/hifiasm
Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
lh3/miniasm
Ultrafast de novo assembly for long noisy reads (though having no consensus step)
tseemann/nullarbor
:floppy_disk: :page_with_curl: "Reads to report" for public health and clinical microbiology
lh3/fermikit
De novo assembly based variant calling pipeline for Illumina short reads
bcgsc/RNA-Bloom
:hibiscus: reference-free transcriptome assembly for short and long reads
lh3/fermi
A WGS de novo assembler based on the FMD-index for large genomes
lh3/fermi-lite
Standalone C library for assembling Illumina short reads in small regions
lvrcek/GNNome-assembly
Learning to untangle genome assembly with graph neural networks.
nf-core/bacass
Simple bacterial assembly and annotation pipeline
denisbeslic/denovopipeline
Pipeline for de novo peptide sequencing (Novor, DeepNovo, SMSNet, PointNovo, Casanovo) and assembly with ALPS.
PalMuc/TransPi
TransPi – a comprehensive TRanscriptome ANalysiS PIpeline for de novo transcriptome assembly
telatin/nextflow-example
A simple DSL2 workflow: tutorial
UPHL-BioNGS/Donut_Falls
Basic workflow for nanopore sequencing data
nf-core/denovotranscript
A pipeline for de novo transcriptome assembly of paired-end short reads from bulk RNA-seq
mcveanlab/Corticall
Germline DNM caller based on LdBG assembly of pathogens
nf-core/denovohybrid
UNDER CONSTRUCTION: Hybrid genome assembly pipeline using a combination of long and short sequencing reads
holmrenser/IOGA
Iterative Organellar Genome Assembly
shumengjun/UNEAK
Calling SNPs using UNEAK (de novo) pipeline for ponderosa pine
atgenomix/graphseq
String Graph Construction on Spark
biocorecrg/transcriptome_assembly
Biocore's de novo transcriptome assembly workflow based on Nextflow
nf-core/neutronstar
De novo assembly pipeline for 10X linked-reads using Supernova
joanmarticarreras/VANIR
NextFlow pipeline for Virus Variant calling and de novo Assembly of Nanopore and Illumina Reads
SciLifeLab/NGI-NeutronStar
De novo assembly pipeline for 10X linked-reads, used at the SciLifeLab National Genomics Infrastructure.
CSCLabTW/CloudEC
CloudEC is a MapReduce-based algorithm for correcting errors in next-generation sequencing big data.
strumenti-formali-per-la-bioinformatica/Genome-Assembly-RL
[A.A. 23/24] R. Napoli
systemPipeR/SPdenovo
Workflow Template
tchen-tt/TEi
Identification of transposon insertion sites
ChadFibke/germ
A containerized nextflow pipeline designed to annotate prokaryote genomes.
connor122721/DrosophilaGenomics
Inversion status and de novo assembly of Drosophila melanogaster
groverkaushal/Varying_kmer_effect_in_denovo_assembly
This project plots the effect of selecting different kmer length parameter in 2 different de novo genome assembly tools - AbySS and Velvet.
Mahendra-Maiti/De-Novo-Assembly
Python based implementation of De-Novo transcriptome assembly
mansikath/whole-genome-sequencing-pipeline
A comprehensive workflow for de novo assembly of whole-genome shotgun sequencing data using Velvet, followed by BLAST searches to analyze assembled contigs.
upendrabhattarai/denovo-RNA-Seq-On-Nesi
This is a compilation of my scripts for denovo-RNA-Seq assembly, annotation, and get count metrics for Differential gene expression analysis in Nesi hpc.
zhukovanadezhda/genome-assembler
🛠️🧬De Bruijn graph-based genome assembler📈📊