Projects in Awesome Lists by orangeSi
A curated list of projects in awesome lists by orangeSi .
https://github.com/orangeSi/GSSplayground
Lightweight single-html-file-based Genome Segments playground for Visualize genome features cluster(gene arrow map or other features), add synteny among genome fragments or add crosslink among features, add short(PE/MP)/long reads(pacbio or nanopore) mapping or snpindel in vcf(not support complex sv yet), support all CIGAR of sam alignment, directly modify almost all features in Chrome by click the feature
bam bioinformatics comparative-genomics crosslink depth genecluster genome-viewer genomes igv-like indel long-reads read-mapping snp structure-variation sv svg synteny transcriptomics vcf visualization
Last synced: 18 Nov 2025
https://github.com/orangesi/bam2msa
convert alignment bam to pairwise alignment or multiple sequence alignment (msa) at genome specific region
alignment bam bioinformatics crystal-lang msa pairwise-alignment
Last synced: 30 Jun 2025
https://github.com/orangeSi/bam2msa
convert alignment bam to pairwise alignment or multiple sequence alignment (msa) at genome specific region
alignment bam bioinformatics crystal-lang msa pairwise-alignment
Last synced: 10 Jul 2025
https://github.com/orangesi/pymsaploter
plot Multiple Sequence Alignment(MSA) of Clustal by python package
multiple-sequence-alignment python3 svg visualization
Last synced: 01 May 2025
https://github.com/orangesi/tinypandas
easy-to-use data structures and data analysis tools ( still be in draft, inspired by Python Pandas )
crystal crystal-lang csv dataframe pandas-python vcf
Last synced: 20 Aug 2025
https://github.com/orangesi/grepfile
a alternative for $grep -f A.list B.list which cost too many memory and time
crystal-lang grep-like regex ruby
Last synced: 18 Sep 2025
https://github.com/orangesi/doi2scihub
a simple chrome extension for navigate to scihub by doi
Last synced: 19 May 2026
https://github.com/orangesi/rr
a simple bookmark tool by crystal-lang in command line of terminal for lazy guy in Linux
bookmarks cli cmdline-linux crystal-language keyword-match regexp-match terminal-based todolist
Last synced: 19 Jul 2026
https://github.com/orangesi/pykits
simple python script for bioinformatics
bioinformatics-scripts biopython fasta fire-python pandas-python python3
Last synced: 08 Jun 2026
https://github.com/orangesi/jfire.jl
Jfire is a simple julia package for auto generate command line interfaces (CLIs) to call functions or modules, inspired by fire package of python
cli fire function julia julia-language module
Last synced: 17 Mar 2026
https://github.com/orangesi/pygtrait
genome chromosome traits or marker annotation plot
genome-annotation gws markers traits
Last synced: 04 Oct 2025
https://github.com/orangesi/heatmapy
simple categorical heatmap or segment value-color free defined by user
categorize heatmap python3 segment
Last synced: 04 Jun 2026
https://github.com/orangesi/flying_report
simple markdown tool for static html document, like bioinformatics pipeline report
Last synced: 14 May 2026
https://github.com/orangesi/grainbow
show the genome structure variation or assembly error by pair-end or mate-pair reads
bioinformatics genome-assembly rainbow reads-based structure-variation
Last synced: 10 May 2026
https://github.com/orangesi/pyasynteny
different assembly result compare by synteny
Last synced: 26 Jul 2025
https://github.com/orangesi/svploter
show structure variation of genome covered by long-reads or short reads
Last synced: 14 Feb 2026