pacbio-sequencing
There are 28 repositories under pacbio-sequencing topic.
bcgsc/RNA-Bloom
:hibiscus: reference-free transcriptome assembly for short and long reads
PacificBiosciences/MethBat
A battery of methylation tools for PacBio HiFi reads
WGLab/NanoRepeat
NanoRepeat: fast and accurate analysis of Short Tandem Repeats (STRs) from Oxford Nanopore sequencing data
zhixingfeng/iGDA
Detect and phase minor SNVs from long-read sequencing data
Mangul-Lab-USC/review-technology-dictates-algorithms
A systematic survey of algorithmic foundations and methodologies across 107 alignment methods (1988-2021), for both short and long reads. We provide a rigorous experimental evaluation of 11 read aligners to demonstrate the effect of these underlying algorithms on speed and efficiency of read alignment. Described by Alser et al. at https://arxiv.org/abs/2003.00110.
GDelevoye/SMSN
Re-implementation of J. Beaulaurier et al's SMSN strategy, using the default PacBio tools
zhengzhenxian/Repun
An accurate small variant representation unification method for multiple sequencing platforms
RevantOrg/Revant
De novo repeat inference from long reads
caspargross/expander
Identify and characterize repeat expansions in long read data
nicolo-tellini/LRSDAY-Patch
Patch for LRSDAY v1.6 for Debian-based and SUSE-based OS.
codecreatede/genomeassembly-pacbiohifi
pacbioHifi genome assembly benchmarks
codecreatede/go-pacbiohifi
profiling pacbiokmers and filtering pacbio kmers
ibenjame/SM-PATseq
Snakemake workflow for SM-PATseq
codecreatede/go-longread-canvas
trimmomatic for long reads
codecreatede/go-multi-longread-canvas
multipattern trimmomatic for long reads
codecreatede/go-pacbiohifi-visualization
streaming visualization of pacbiohifi reads
codecreatede/pacbio-nanopore-polyATGC-remove
polyATGC pacbio/oxford nanopore estimator
codecreatede/pacbio-nanopore-repeat-coverage
pacbio/oxford nanopore long reads repeat coverage estimation
codecreatede/pacbiohifi-analyzer
ruby gem for analyzing pacbiohifi genomes and reads
codecreatede/pacbiohifi-awk
awk utilites for anlyzing pacbiohifi genomes and reads
codecreatede/pacbiohifi-desktop
a streamlit application for graphical analyisis of pacbiohifi reads
codecreatede/pacbiohifi-fasta-converter
bash based fasta conversion of pacbiohifi reads and filtering.
codecreatede/pacbiohifi-motif-scanner
extracting specific motifs from pacbio and oxford nanopore long reads.
codecreatede/pacbiohifi-report-classifier
pacbiohifi report classifier for any sequencing startups
codecreatede/pacbiohifi-sam-sort
go driven pacbiohifi sam sort for browser requests and caching
codecreatede/pacbiohifiKmerprofile.jl
kmer profile for pacbiohifi reads in julia language
codecreatede/short-long-read-alignment-codegetter
codegetter for illumina, pacbio and oxford long read and short reads
codecreatede/view-pacbiohifi-awk
pacbiohifi view using awk