Bioinformaticx

Hash functions in nucleotide sequence analysis doi.org/10.1101/gr.281453.12… #Bioinformatics #Bioinformaticx

Haplotype-resolved genome assemblies of BJ and IMR-90 human fibroblast cell lines reveal extensive structural variation and enable reanalysis of historical sequencing data doi.org/10.1093/nar/gkag333 #Bioinformatics #Bioinformaticx

MBGC2: Boosting compression via efficient encoding of approximate matches in genome collections doi.org/10.1093/gigascience/… #Bioinformatics #Bioinformaticx

PQSDC: a parallel lossless compressor for quality scores data via sequences partition and run-length prediction mapping doi.org/10.1093/bioinformati… #Bioinformatics #Bioinformaticx

FALCON2: compression-based metagenomic classification of ancient viruses doi.org/10.1093/bioinformati… #Bioinformatics #Bioinformaticx

An evaluation of computational methods for reconstruction of human viral DNA genomes doi.org/10.1093/gigascience/… #Bioinformatics #Bioinformaticx

Learning a generalized graph transformer for protein function prediction in dissimilar sequences doi.org/10.1093/gigascience/… #Bioinformatics #Bioinformaticx

Intra-host genomic diversity and integration landscape of human tissue-resident DNA virome doi.org/10.1093/nar/gkae871 #Bioinformatics #Bioinformaticx

Fully resolved assembly of Cryptosporidium parvum doi.org/10.1093/gigascience/… #bioinformatics #bioinformaticx

A super-pangenome of the North American wild grape species doi.org/10.1186/s13059-023-0… #Bioinformatics #Bioinformaticx

AlcoR: alignment-free simulation, mapping, and visualization of low-complexity regions in biological data doi.org/10.1093/gigascience/… #Bioinformatics #Bioinformaticx

Efficient and accurate KIR and HLA genotyping with massively parallel sequencing data doi.org/10.1101/gr.277585.12… #Bioinformatics #Bioinformaticx

Efficient mapping of accurate long reads in minimizer space with mapquik doi.org/10.1101/gr.277679.12… #Bioinformatics #Bioinformaticx

Efficient short read mapping to a pangenome that is represented by a graph of ED strings doi.org/10.1093/bioinformati… #Bioinformatics #Bioinformaticx

Scrooge: A Fast and Memory-Frugal Genomic Sequence Aligner for CPUs, GPUs, and ASICs doi.org/10.1093/bioinformati… #Bioinformatics #Bioinformaticx

mlf-core: a framework for deterministic machine learning doi.org/10.1093/bioinformati… #Bioinformatics #Bioinformaticx

DNAscan2: a versatile, scalable, and user-friendly analysis pipeline for human next-generation sequencing data doi.org/10.1093/bioinformati… #Bioinformatics #Bioinformaticx

DeepOM: Single-molecule optical genome mapping via deep learning doi.org/10.1093/bioinformati… #Bioinformatics #Bioinformaticx

Unmasking the tissue-resident eukaryotic DNA virome in humans doi.org/10.1093/nar/gkad199 #Bioinformatics #Bioinformaticx

Foldcomp: a library and format for compressing and indexing large protein structure sets doi.org/10.1093/bioinformati… #Bioinformatics #Bioinformaticx