发表论文HAlign1. HAlign: Fast multiple similar DNA/RNA sequence alignment based on the centre star strategy. Bioinformatics. 2015 (soft) 2. HAlign 2: efficient ultra-large multiple sequence alignment and phylogenetic tree reconstruction with distributed and parallel computing. Algorithms for Molecular Biology. 2017 (soft) 3. HAlign 3: fast multiple alignment of ultra-large numbers of similar DNA/RNA sequences. Molecular Biology and Evolution. 2022 (soft) 4. HAlign 4: a new strategy for rapidly aligning millions of sequences. Bioinformatics. 2024 (soft) MSA1. CMSA: a heterogeneous CPU/GPU computing system for multiple similar RNA/DNA sequence alignment. BMC Bioinformatics. 2017 (soft) 2. Reconstructing evolutionary trees in parallel for massive sequences. BMC Systems Biology. 2017 3. Multiple Sequence Alignment Based on a Suffix Tree and Center-Star Strategy: A Linear Method for Multiple Nucleotide Sequence Alignment on Spark Parallel Framework. Journal of Computational Biology. 2017 (soft) 4. VCSRA: A fast and accurate multiple sequence alignment algorithm with a high degree of parallelism. Journal of Genetics and Genomics. 2018 (soft) 5. FMAlign: A novel fast multiple nucleotide sequence alignment method based on FM-index. Briefings in Bioinformatics. 2021 6. Improved Center Star Alignment Algorithm Based on Profile Alignment. Journal of University of Electronic Science and Technology of China. 2022 7. WMSA: a novel method for multiple sequence alignment of DNA sequences. Bioinformatics. 2022 (soft) 8. WMSA2: a multiple DNA/RNA sequence alignment tool implemented with accurate progressive mode and a fast win-win mode combining the center star and progressive strategies. Briefings in Bioinformatics. 2023 (soft) 9. FMAlign2: a novel fast multiple nucleotide sequence alignment method for ultralong datasets. Bioinformatics. 2024 (soft) MSA post-processing1. TPMA: A two pointers meta-alignment tool to ensemble different multiple nucleic acid sequence alignments. PLOS COMPUTATIONAL BIOLOGY. 2024 (soft) 2. ReAlign-N: an integrated realignment approach for multiple nucleic acid sequence alignment, combining global and local realignments. NAR Genomics and Bioinformatics. 2024 (soft) MGA1. Fast sequence alignment for centromere with RaMA. Genome Research. 2025 (soft) PSA1. FORAlign: Accelerating gap-affine DNA pairwise sequence alignment using FOR-blocks based on FOur Russians approach with linear space complexity. Briefings in Bioinformatics. 2025 (soft) Review1. Developments in Algorithms for Sequence Alignment: A Review. Biomolecules. 2022 2. A survey on the algorithm and development of multiple sequence alignment. Briefings in Bioinformatics. 2022 |