Phylogenetics software - Next-Generation Sequencing and Bioinformatics Training

Windows software

[Download] Java JDK x64 ^v8 pick "x64 Installer"

[Download] AliView ^v1.28

[Download] FigTree ^v1.4.4

[Download] MAFFT ^v7.520 instalation information [Here]

[Download] SAMPI Subsampling According to Metadata for Phylogenetic Inference

[Download] CAMPI Cleaning According to Metadata for Phylogenetic Inference

[Download] Python ^v3.12.3 and Biopython

_{Text editor}

[Download] Notepad Plus Plus ^v8.6.5

macOS software

[Download] Java JDK x64 ^v8 pick "x64 DMG Installer" if Intel mac or "ARM64 DMG Installer" if M1/M2/M3 mac

[Download] AliView ^v1.28

[Download] FigTree ^v1.4.4

[Download] MAFFT ^v7.520 instalation information [Here]

[Download] SAMPI Subsampling According to Metadata for Phylogenetic Inference

[Download] CAMPI Cleaning According to Metadata for Phylogenetic Inference

[Download] Python ^v3.12.3 and Biopython

_{Text editor}

[Download] BBEdit ^v15.0.3

Linux software

[Download] Java JDK x64 ^v8 pick the correct package for your Linux distribution

[Download] AliView ^v1.28

[Download] FigTree ^v1.4.4

[Download] MAFFT ^v7.52X

[Download] SAMPI Subsampling According to Metadata for Phylogenetic Inference

[Download] CAMPI Cleaning According to Metadata for Phylogenetic Inference

[Download] Python and Biopython

Web tools (installation not required)

[Access] PANGOLIN server ^web

[Access] Nextclade server ^web

[Access] GISAID website ^web

[Access] MAFFT server ^web

[Access] IQTree server 1 ^web

[Access] IQTree server 2 ^web

Phylogenetics software - Next-Generation Sequencing and Bioinformatics Training - April 2024