Fixed up the readme

readme.md

@@ -27,6 +27,9 @@ Display all files installed by a specific package in a hierarchical tree structu
 # Show files installed by bash package
 cargo run -- tree --package bash
 
+# Show files for Flatpak application
+cargo run -- tree --package "Signal Desktop (org.signal.Signal)"
+
 # Show trees for first 5 packages (demo mode)
 cargo run -- tree
 ```
@@ -48,11 +51,17 @@ cargo run -- file /usr/bin/bash
 ```
 
 ### List All Packages
-Display all installed packages:
+Display all installed packages from all managers:
 
 ```bash
-# List all packages
+# List all packages from all managers
 cargo run -- packages
+
+# List only DNF packages
+cargo run -- packages --source dnf
+
+# List only Flatpak packages  
+cargo run -- packages --source flatpak
 ```
 
 ### Find Files
@@ -61,6 +70,9 @@ Search for files within packages:
 ```bash
 # Find all files in bash package
 cargo run -- find --package bash
+
+# Find all files in Flatpak application
+cargo run -- find --package "Signal Desktop (org.signal.Signal)"
 ```
 
 ## Example Output
@@ -83,27 +95,48 @@ bash 5.2.15-6.fc41
 └── etc/
     └── skel/
         └── .bashrc
+
+Signal Desktop (org.signal.Signal) 7.63.0
+├── /var/lib/flatpak/app/org.signal.Signal/
+├── /var/lib/flatpak/exports/share/applications/org.signal.Signal.desktop
+└── ~/.var/app/org.signal.Signal/
 ```
 
 ### File Ownership
 ```
 /usr/bin/bash is owned by package: bash
+~/.var/app/org.signal.Signal is owned by package: org.signal.Signal
+```
+
+### Package Listing
+```
+DNF packages (1,847 total):
+  bash 5.2.15-6.fc41
+  glibc 2.37-4.fc38
+  kernel 6.8.5-301.fc40
+
+Flatpak packages (7 total):
+  Zen (app.zen_browser.zen) 1.14.9b
+  Signal Desktop (org.signal.Signal) 7.63.0
+  GIMP (org.gimp.GIMP) 3.0.4
 ```
 
 ## Architecture
 
 The tool is designed with a modular architecture supporting multiple package managers:
 
-- **Package Manager Abstraction** - Common interface for all package managers
+- **Package Manager Abstraction** - Common interface for DNF, Flatpak, and future managers
-- **Binary Database Format** - High-performance storage for file metadata
+- **Universal File Tracking** - Track files across traditional packages and sandboxed applications
+- **Source-Aware Filtering** - Filter by package manager type (DNF, Flatpak, etc.)
+- **Binary Database Format** - High-performance storage for file metadata (planned)
 - **CLI Interface** - Clean command-line interface built with Clap
 - **Tree Visualization** - Hierarchical display of package contents
 
 ## Supported Package Managers
 
-- ✅ **DNF/RPM** (Fedora, RHEL, CentOS)
+- ✅ **DNF/RPM** (Fedora, RHEL, CentOS) - Full support
+- ✅ **Flatpak** (Universal) - Full support
 - 🚧 **APT** (Debian, Ubuntu) - Coming Soon
-- 🚧 **Flatpak** - Coming Soon  
 - 🚧 **Snap** - Coming Soon
 - 🚧 **Pacman** (Arch Linux) - Coming Soon
 
@@ -124,7 +157,12 @@ Built with Rust 2021 edition. Key dependencies:
 
 ## Roadmap
 
-- [ ] Complete support for all major package managers
+- [x] DNF/RPM support with file ownership tracking
+- [x] Flatpak support with sandboxed application tracking  
+- [x] Universal package listing with source filtering
+- [x] Package file tree visualization
+- [ ] Snap support
+- [ ] APT support for Debian/Ubuntu systems
 - [ ] Real-time filesystem monitoring
 - [ ] Binary database format for fast queries
 - [ ] GUI interface