seqtk | Toolkit for processing sequences in FASTA/Q formats | Genomics library

 by   lh3 C Version: v1.4 License: MIT

kandi X-RAY | seqtk Summary

kandi X-RAY | seqtk Summary

seqtk is a C library typically used in Artificial Intelligence, Genomics applications. seqtk has no bugs, it has no vulnerabilities, it has a Permissive License and it has medium support. You can download it from GitHub.

Seqtk is a fast and lightweight tool for processing sequences in the FASTA or FASTQ format. It seamlessly parses both FASTA and FASTQ files which can also be optionally compressed by gzip. To install seqtk,. The only library dependency is zlib.

            kandi-support Support

              seqtk has a medium active ecosystem.
              It has 1154 star(s) with 296 fork(s). There are 63 watchers for this library.
              There were 1 major release(s) in the last 12 months.
              There are 44 open issues and 113 have been closed. On average issues are closed in 52 days. There are 11 open pull requests and 0 closed requests.
              It has a neutral sentiment in the developer community.
              The latest version of seqtk is v1.4

            kandi-Quality Quality

              seqtk has 0 bugs and 0 code smells.

            kandi-Security Security

              seqtk has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.
              seqtk code analysis shows 0 unresolved vulnerabilities.
              There are 0 security hotspots that need review.

            kandi-License License

              seqtk is licensed under the MIT License. This license is Permissive.
              Permissive licenses have the least restrictions, and you can use them in most projects.

            kandi-Reuse Reuse

              seqtk releases are available to install and integrate.
              Installation instructions are not available. Examples and code snippets are available.

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            seqtk Key Features

            No Key Features are available at this moment for seqtk.

            seqtk Examples and Code Snippets

            No Code Snippets are available at this moment for seqtk.

            Community Discussions


            Input vs Output: Job completed successfully, but some output files are missing
            Asked 2020-Sep-21 at 20:08

            My pipeline is failing I believe due to a conflict between the expected out put of rule all vs the actual final output. I believe snakemake is waiting for the file kma/{sample} without an extension to appear instead it is getting a directory that has multiext("kma/{sample}", ".res", ".aln", ".fsa", ".gz") and I am having trouble getting them to play well.



            Answered 2020-Sep-21 at 20:08

            EDIT 21SEP2020

            I have figured out the correct way to run this application.

            first I need the rule all like this



            Extract UNIQUE fasta sequences from a text file
            Asked 2020-Feb-21 at 23:06

            I have a TXT file:



            Answered 2020-Feb-21 at 23:06

            Community Discussions, Code Snippets contain sources that include Stack Exchange Network


            No vulnerabilities reported

            Install seqtk

            You can download it from GitHub.


            For any new features, suggestions and bugs create an issue on GitHub. If you have any questions check and ask questions on community page Stack Overflow .
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