a shell code getter for genomics alignments for the illumina and long reads from pacbio and the oxfordnanopore
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Updated
May 2, 2024 - Shell
a shell code getter for genomics alignments for the illumina and long reads from pacbio and the oxfordnanopore
Nanopore based RNA-Seq pipeline for viral samples
Documentation for running microPIPE at Pawsey
This repo is for the scripts used in preparation of Flongle Actinomycetes paper
Run Oxford Nanopore MinION software in Docker containers. Mirror of https://gitlab.com/lapinskim/minion_docker
Wastewater Enterovirus Typing Tool
Accompanying information to a scientific publication on the assembly of bacterial genomes using Illumina and nanopore sequencing data using Unicylcer.
Project to simulate simple Oxford Nanopore Technologies RNA signals
Nextflow pipeline incorporating the tracm alignment step alone.
A implication of stringr package to calculate the pattern detection in R using the stringR package for the pacbio and the oxford nanopore reads
Documentation for the https://github.com/JannesSP/read5 repository
Nextflow pipeline for basecalling / demultiplexing ONT data, using Dorado
making bcftools filtering easy. bcftools_filter which will allow for the faster filtering of the variant calls according to the allelic depth and the tags using simple to overlap approaches as compare to implementing the regular patterns.
A regular expression based polyATGC trimmer for the long reads or the fastq reads extremely fast and returns a fasta and also a dataframe for the sequence classification
This page is contains all the software and commands I've used for my mtDNA analysis.
a shorter version of the long_read_polyATGC_trimmer after implementing a array recompile and storing the variables while running a subtle part of the recursion.
Scripts for Basecalling on GridION Sequenicng machines from Oxford Nanopore
poreSTAT: a python framework for working with fast5 third generation sequencing data
Wrapper to read fast5 and pod5 files.
A pipeline for variant calling from P. falciparum short reads generated from Illumina and ONT libraries
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