https://github.com/applicativesystem/go-alignment-proportion
golang for estimating the genome site proportion
https://github.com/applicativesystem/go-alignment-proportion
alignment-algorithms alignments bioinformatics genome-analysis genome-analysis-annotation phylogenetic-analysis phylogenetic-comparative-methods phylogenomics phylogenomics-bioinformatics
Last synced: 6 months ago
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golang for estimating the genome site proportion
- Host: GitHub
- URL: https://github.com/applicativesystem/go-alignment-proportion
- Owner: applicativesystem
- License: mit
- Created: 2024-09-19T10:01:28.000Z (about 1 year ago)
- Default Branch: main
- Last Pushed: 2024-09-29T07:56:17.000Z (about 1 year ago)
- Last Synced: 2024-12-16T02:12:08.843Z (10 months ago)
- Topics: alignment-algorithms, alignments, bioinformatics, genome-analysis, genome-analysis-annotation, phylogenetic-analysis, phylogenetic-comparative-methods, phylogenomics, phylogenomics-bioinformatics
- Language: Go
- Homepage:
- Size: 4.88 KB
- Stars: 1
- Watchers: 1
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- License: LICENSE
Awesome Lists containing this project
README
go-alignment-proportion
- estimates the number of the unified bases in whole genome alignments
- faster calibration rates
- part of the alignmentGO package but can be used separately
- given a alignment it will profile, list the indices and the sites of the same bases.
```
[gauravsablok@fedora]~/Desktop/codecreatede/go-alignment-proportion%
go run main.go -h
This estimates the site proportion in your whole genome or gene specific alignment
Usage:
flags [flags]
Flags:
-a, --alignmentfile string a alignment file (default "align")
-h, --help help for flags
[gauravsablok@fedora]~/Desktop/codecreatede/go-alignment-proportion% \
go run main.go -a ./samplefile/samplealignment.fasta
The alignment counts for the A unified bases to the rest of the same sites in the block are: 1
The alignment counts for the T unified bases to the rest of the same sites in the block are: 2
The alignment counts for the G unified bases to the rest of the same sites in the block are: 1
The alignment counts for the C unified bases to the rest of the same sites in the block are: 1
```
Gaurav Sablok