changeo
Repertoire clonal assignment toolkit (Python 3)
Command lineScience
Not tested on a device yet. What that means
Commands in the package
AlignRecords.pyAssignGenes.pyBuildTrees.pyConvertDb.pyCreateGermlines.pyDefineClones.pyMakeDb.pyParseDb.py
About changeo
From Debian's package description
Change-O is a collection of tools for processing the output of V(D)J alignment tools, assigning clonal clusters to immunoglobulin (Ig) sequences, and reconstructing germline sequences.
Dramatic improvements in high-throughput sequencing technologies now enable large-scale characterization of Ig repertoires, defined as the collection of trans-membrane antigen-receptor proteins located on the surface of B cells and T cells. Change-O is a suite of utilities to facilitate advanced analysis of Ig and TCR sequences following germline segment assignment. Change-O handles output from IMGT/HighV-QUEST and IgBLAST, and provides a wide variety of clustering methods for assigning clonal groups to Ig sequences. Record sorting, grouping, and various database manipulation operations are also included.
This package installs the library for Python 3.
From Debian's description of the changeo package, under that package's license.
Dependencies
Depends on
python3-airrpython3-biopythonpython3-numpypython3-pandaspython3-prestopython3-scipypython3-yamlpython3
Related apps
- dsspprotein secondary structure assignment based on 3D structureCommand line
- rambo-kRead Assignment Method Based On K-mersCommand line
- dcmtkOFFIS DICOM toolkit command line utilitiesCommand line
- montageToolkit for assembling FITS images into mosaicsCommand line
- subreadtoolkit for processing next-gen sequencing dataCommand line
- seqkitcross-platform and ultrafast toolkit for FASTA/Q file manipulationCommand line
Sources and licenses
- Name: the Debian package name.
- Summary: Debian's short description of the changeo package, under that package's license.
- Description: Debian's description of the changeo package, under that package's license.
- Versions and sizes: Debian's archive for ARM64, as on packages.debian.org.
- Popularity: Debian Popularity Contest counts.
More in About the catalog.