shenwei356/seqkit: SeqKit v2.10.0

Changes

• SeqKit v2.10.0 - 2025-03-12
  • seqkit:
    • add a global flag --skip-file-check: skip input file checking when given a file list if you believe these files do exist. It helps to reduce file checking time when given a huge number of sequence files.
  • seqkit split2:
    • fix prefix checking when paired-end files are given. #512
  • seqkit stat:
    • do not compute GC content and N's for protein sequence. #497
  • seqkit grep:
    • add early exit for --delete-matched when no patterns remain #505 by @sawyerknoblich
  • seqkit concat:
    • add an option -F/--fill to use a sequence of "-" for IDs missing in some files, can be used in MSA results. #510

Links

| OS | Arch | File, 中国镜像 | Download Count | | :------ | :--------- | :------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ | :----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- | | Linux | 32-bit | seqkit_linux_386.tar.gz, <br/> 中国镜像 | | | Linux | 64-bit | seqkit_linux_amd64.tar.gz, <br/> 中国镜像 | | | Linux | arm64 | seqkit_linux_arm64.tar.gz, <br/> 中国镜像 | | | macOS | 64-bit | seqkit_darwin_amd64.tar.gz, <br/> 中国镜像 | | | macOS | arm64 | seqkit_darwin_arm64.tar.gz, <br/> 中国镜像 | | | Windows | 32-bit | seqkit_windows_386.exe.tar.gz, <br/> 中国镜像 | | | Windows | 64-bit | seqkit_windows_amd64.exe.tar.gz, <br/> 中国镜像 | |

Notes

• please open an issuse to request binaries for other platforms.
• run seqkit version to check update !!!
• run seqkit genautocomplete to update shell autocompletion script !!!

Please cite

Wei Shen*, Botond Sipos, and Liuyang Zhao. 2024. SeqKit2: A Swiss Army Knife for Sequence and Alignment Processing. iMeta e191. doi:10.1002/imt2.191. <span class="__dimensions_badge_embed__" data-doi="10.1002/imt2.191" data-style="small_rectangle"></span>