---
name: "Jelly"
section: "1"
platform: "linux"
package: "pbjelly"
version: "15.8.24+dfsg-7"
release: "Debian 12 (Bookworm)"
platforms: ["linux"]
url: "https://new.carta.tech/Jelly"
---

# Jelly(1)

genome assembly upgrading tool

## NAME

Jelly - genome assembly upgrading tool

## DESCRIPTION

PBJelly is a highly automated pipeline that aligns long sequencing reads (such as PacBio RS reads or long 454 reads in fasta format) to high-confidence draft assembles. PBJelly fills or reduces as many captured gaps as possible to produce upgraded draft genomes.

## OPTIONS

For a complete description, see the help menu

- **-h, --help**

  Show summary of options.

## SEE ALSO

/usr/share/doc/pbjelly/JellyReadme.txt