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github.com/SilentGene/Bio-py @v1.0

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repository ↗ · DeepWiki ↗ · release v1.0 ↗ · + Follow
50 symbols 155 edges 11 files 17 documented · 34%
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README

Bio-py

Some useful python scripts for biologists.

All the scripts in this repo are developed and tested on python >= 3.6.

I would be glad if you submit issues or send me emails at heyu.lin@student.unimelb.edu.au for questions, suggestions or other feedback.

How to cite

If you find these scripts useful for your scientific research, please consider citing this repo to make the scripts easier to be found by other peers. you can do so either by directly indicate the link (https://github.com/SilentGene/Bio-py) or citing as:

Lin H, SilentGene/Bio-py, (2020), GitHub repository, https://github.com/SilentGene/Bio-py

Core symbols most depended-on inside this repo

include_outputdir
called by 6
blast-matrix/blast_identity_matrix.py
run_blastp
called by 2
POCP-matrix/POCP-matrix.py
num_sequnces
called by 2
POCP-matrix/POCP-matrix.py
blast_Parser
called by 2
blast-wrapper/blast_wrapper.py
batch_iterator
called by 1
fasta-splitter/fasta_splitter.py
total_num_calc
called by 1
fasta-splitter/fasta_splitter.py
splitter
called by 1
fasta-splitter/fasta_splitter.py
main
called by 1
fasta-splitter/fasta_splitter.py

Shape

Function 50

Languages

Python100%

Modules by API surface

prokka2kegg/prokka2kegg_batch.py9 symbols
blast-wrapper/blast_wrapper.py8 symbols
POCP-matrix/POCP-matrix.py8 symbols
prokka2kegg/prokka2kegg.py7 symbols
Minimus2-pipeline/Minimus2_pipeline.py6 symbols
fasta-splitter/fasta_splitter.py4 symbols
blast-matrix/blast_identity_matrix.py4 symbols
remove_duplicate_seqs/remove_duplicate_seqs.py3 symbols
prodigal-wrapper/prodigal_run.py1 symbols

For agents

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

⬇ download graph artifact