Cell-type Annotation for Single-cell Transcriptomics using Deep Learning with a Weighted Graph Neural Network

De novo construction of isoforms from long-read data

The source code and results for different methods on annotating external testing datsets of human and mouse.

Get the consensus sequences from SAM (and BAM) files, ignoring the reference

Reference-free FASTQ filter for rare germline and somatic variants

HUMID: reference free FastQ deduplication

ESKRIM is a reference-free tool that compares microbial richness in shotgun metagenomic samples by counting k-mers

MUSTANG: reference-free MUlti-sample Spatial Transcriptomics data ANalysis with cross-sample transcriptional similarity Guidance

Example of an estimation of cell-type proportions using reference-free method (RefFreeEWAS)

De novo clustering of long transcript reads into genes

Alignment-free phylogenomic splits