Pynteny: a Python package to perform synteny-aware, profile HMM-based searches in sequence databases

This publication has 13 references indexed in Scilit:

• clinker & clustermap.js: automatic generation of gene cluster comparison figures
  Bioinformatics, 2021
• RefSeq: expanding the Prokaryotic Genome Annotation Pipeline reach with protein family model curation
  Nucleic Acids Research, 2020
• Magic-BLAST, an accurate RNA-seq aligner for long and short reads
  BMC Bioinformatics, 2019
• Challenges in homology search: HMMER3 and convergent evolution of coiled-coil regions
  Nucleic Acids Research, 2013
• MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity
  Nucleic Acids Research, 2012
• Hidden Markov model speed heuristic and iterative HMM search procedure
  BMC Bioinformatics, 2010
• genoPlotR: comparative gene and genome visualization in R
  Bioinformatics, 2010
• Prodigal: prokaryotic gene recognition and translation initiation site identification
  BMC Bioinformatics, 2010
• Synteny and Collinearity in Plant Genomes
  Science, 2008
• What is a hidden Markov model?
  Nature Biotechnology, 2004