carveme
StrayVisualizer
| carveme | StrayVisualizer | |
|---|---|---|
| 2 | 1 | |
| 138 | 61 | |
| - | - | |
| 5.0 | 0.0 | |
| 2 months ago | over 1 year ago | |
| Python | Python | |
| GNU General Public License v3.0 or later | MIT License |
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carveme
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Advice on how to go about genome scale metabolic model construction
Carveme: https://academic.oup.com/nar/article/46/15/7542/5042022 https://github.com/cdanielmachado/carveme https://carveme.readthedocs.io/en/latest/usage.html
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metaGEM: create your own genome scale metabolic models directly from metagenomes
Thanks sharing, I believe I have seen the github repo/paper before! Looks very interesting, I wonder if mantis could be used for expanding the functional annotation of sequences in the BiGG database (paper). This is the database that is used by CarveMe (paper) for building metabolic models from protein fasta files within the metaGEM workflow. I believe that CarveMe does not actually use the annotations themselves, but simply aligns sequences in a fasta file to the BiGG database, which contains associations between sequences -> genes -> reactions -> metabolites.
StrayVisualizer
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Collecting RGB-D Datasets on LiDAR Enabled iOS devices
I posted a couple datasets here https://github.com/kekeblom/StrayVisualizer
What are some alternatives?
metaGEM - :gem: An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data
Photogrammetry-Guide - Photogrammetry Guide. Photogrammetry is widely used for Aerial surveying, Agriculture, Architecture, 3D Games, Robotics, Archaeology, Construction, Emergency management, and Medical.
ancient-microbiome-denovo
PyDBoW - Python Implementation of Bags of Binary Words
DECA - DECA: Detailed Expression Capture and Animation (SIGGRAPH 2021)
slam-python - SLAM - Simultaneous localization and mapping using OpenCV and NumPy.
embl_gems - EMBL GEMs: A collection of GEnome-scale Models for bacterial species
stereoDepth - single and stereo calibration, disparity calculation.
deepdiff - DeepDiff: Deep Difference and search of any Python object/data. DeepHash: Hash of any object based on its contents. Delta: Use deltas to reconstruct objects by adding deltas together.
analog-watch-recognition - Reading time from analog clocks
Open3D-PointNet - Open3D PointNet implementation with PyTorch