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Feb 20, 2023 - Perl
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🚀 A sequencing simulator
C++ Library to parse Illumina InterOp files
Framework to process and call somatic variation from NGS dataset generated using MSK-IMPACT assay
A collection of publications on comparison of high-throughput sequencing technologies.
LDPC codes for Illumina sequencing-based DNA storage
Automated pipeline for amplicon sequence analysis
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.…
A pipeline for variant calling from P. falciparum short reads generated from Illumina and ONT libraries
This is the pipeline that handles SARS-CoV-2 samples from the health sector in Region Midtjylland (Illumina PE)
Series of scripts to analyse 454 and Illumina sequences in SSU amplicon against MaarjAM database
Updated Reference Genome Sequence and Annotation of Mycobacterium bovis AF2122/97
Copy Number Variant Analyzer for Illumina Dragen files. Work in Progress...
ABBA-BABA test conducted on Saccharomyces cerevisiae strains using whole-genome alignment.
Discover VNTR-associated DELs that are hard to find using Illumina reads
Illumina pipeline for 16S sequencing, completed in Python.
Create fastq symlinks for selected samples in sequencer output directories based on several criteria
📦 Interleave and deinterleave FASTQ files. Streams and gzipped FASTQ files are accepted.
A Github action for building Snapcraft projects
Group B Strep pipelines for large dataset gene analysis from Illumina sequencing.
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