NanoRepeat: fast and accurate analysis of Short Tandem Repeats (STRs) from Oxford Nanopore sequencing data
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Updated
May 24, 2024 - Python
NanoRepeat: fast and accurate analysis of Short Tandem Repeats (STRs) from Oxford Nanopore sequencing data
a pacbiohifi read check for the quick view of the read types.
awk code for pacbiohifi alignments from verkko and other genome assembly methods
lastz alignment sorting and plotting the alignment length
pattern detection in R using the stringR package for the pacbio and the oxford nanopore reads
pacbiohifi sequencing genomes analysis using the verkko, hifiasm and the genomeasm4pg.
long_read_polyATGC_trimmer using regular expression.
genome assembly to pangraphs from illumina to long reads.
a conda yaml for the genomehifi-contiguity analysis.
code getter for illumina, pacbio, oxford long reads alignments.
bcftools for dealing with bcf files.
pacbio or oxford nanopore long reads repeat coverage estimation.
A battery of methylation tools for PacBio HiFi reads
🌺 reference-free transcriptome assembly for short and long reads
De novo repeat inference from long reads
Patch for LRSDAY v1.6 for Debian-based and SUSE-based OS.
Re-implementation of J. Beaulaurier et al's SMSN strategy, using the default PacBio tools
Snakemake workflow for SM-PATseq
Detect and phase minor SNVs from long-read sequencing data
Identify and characterize repeat expansions in long read data
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