Author

Alessandro Calicchio

University of California, Santa CruzORCID 0009-0008-7329-2071Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 2

Signature Assays, Organisms & Methods

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Approach:statistical model· 2 Research Focus:variant calling· 2 Assay:bulk RNA-seq· 1 Research Focus:differential expression· 1 Research Focus:gene regulatory network inference· 1 Organism:human· 1 Assay:scRNA-seq· 1 Assay:whole-genome sequencing· 1

Frequent Co-Authors

Amanda O. Li· 1 shared Benedict PateniD· 1 shared Christopher VollmersiD· 1 shared Evan E. EichleriD· 1 shared Hailey LoucksiD· 1 shared Honey E. MekoneniD· 1 shared Jordan M. EizengaiD· 1 shared Julian LucasiD· 1 shared

Activity by Year

2026-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 24 mutual co-author links

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1 shared paperBioinformatics

Amanda O. Li

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2 papers

Recent·Most cited

BioinformaticsbioRxivPreprintOct 29, 2026

IG-28 enables identification and quantification of high-confidence isoforms from large bulk and single-cell full-length cDNA datasets

Alessandro Calicchio, Amanda O. Li, Tanvi Herwadkar…·Christopher Vollmers

IG-28 identifies and quantifies high-confidence isoforms from large bulk and single-cell full-length cDNA datasets more effectively than existing tools.

DOI 10.64898/2026.10.23.761370

bulk RNA-seqscRNA-seq

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BioinformaticsbioRxivPreprintMar 2, 2026

Evaluating genome assemblies with HMM-Flagger

Mobin Asri, Jordan M. Eizenga, Prajna Hebbar…·Benedict Paten

HMM-Flagger evaluates genome assemblies by detecting structural errors using read coverage modeling, showing improved accuracy in human assemblies.

4 citations

humanwhole-genome sequencing

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