hub / github.com/dariober/ASCIIGenome

github.com/dariober/ASCIIGenome @v1.20.0

Chat with this repo

repository ↗ · DeepWiki ↗ · release v1.20.0 ↗ · + Follow

1,627 symbols 7,529 edges 130 files 314 documented · 19%

What it actually does AI analysis from the code graph — generated when you open this

loading…

README

Text Only Genome Viewer!

Description

ASCIIGenome is a genome browser based on command line interface and designed for running from console terminals.

Since ASCIIGenome does not require a graphical interface it is particularly useful for quickly visualizing genomic data on remote servers while offering flexibility similar to popular GUI viewers like IGV.

Documentation is at readthedocs/asciigenome.

Support: Bugs, comments and issues can be reported here on GitHub or on Biostars.org.

Some key features:

Command line input and interaction, no graphical interface, minimal installation and requirements.
Can load multiple files in various formats.
Can access remote files via URL or ftp address.
Easy navigation and searching for features and sequence motifs and filtering options
Support for BS-Seq alignment

Core symbols most depended-on inside this repo

add

called by 623

src/main/java/tracks/Locus.java

get

called by 443

src/main/java/utils/BedLine.java

get

called by 285

src/main/java/session/SessionHandler.java

equals

called by 198

src/main/java/tracks/IntervalFeature.java

equals

called by 182

src/main/java/session/Session.java

add

called by 175

src/main/java/samTextViewer/GenomicCoordsHistory.java

tokenize

called by 123

src/main/java/samTextViewer/Utils.java

getTrack

called by 122

src/main/java/tracks/TrackSet.java

Shape

Method 1,493

Class 121

Enum 12

Function 1

Languages

Java98%

Python2%

Ruby1%

Modules by API surface

src/main/java/tracks/Track.java112 symbols

src/main/java/samTextViewer/Utils.java82 symbols

src/main/java/tracks/TrackSet.java77 symbols

src/test/java/samTextViewer/UtilsTest.java74 symbols

src/main/java/samTextViewer/GenomicCoords.java65 symbols

src/test/java/tracks/TrackIntervalFeatureTest.java56 symbols

src/main/java/tracks/TrackIntervalFeature.java44 symbols

src/main/java/tracks/IntervalFeature.java44 symbols

src/main/java/utils/IOUtils.java40 symbols

src/test/java/tracks/TrackSetTest.java39 symbols

src/test/java/integration_test.py33 symbols

src/test/java/samTextViewer/InteractiveInputTest.java32 symbols

For agents

$ claude mcp add ASCIIGenome \
  -- python -m otcore.mcp_server <graph>

⬇ download graph artifact