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Split complex Python example for easier reading
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lauraluebbert authored Oct 9, 2024
1 parent 7f68a34 commit 0117eb6
Showing 1 changed file with 19 additions and 3 deletions.
22 changes: 19 additions & 3 deletions docs/src/es/mutate.md
Original file line number Diff line number Diff line change
Expand Up @@ -194,9 +194,25 @@ gget mutate \
```
```python
# Python
gget.mutate(sequences="genome_reference.fa", mutations="mutations_input.csv", out="mut_fasta.fa", k=4, seq_id_column="Chromosome", mut_column="Mutation", gtf="genome_annotation.gtf", gtf_transcript_id_column="Ensembl_Transcript_ID", optimize_flanking_regions=True, update_df=True, update_df_out="mutations_updated.csv", store_full_sequences=True, translate=True, translate_start="Translate_Start", translate_end="Translate_End")
```
→ Toma el archivo 'mutations_input.csv' que contiene:
gget.mutate(
sequences="genome_reference.fa",
mutations="mutations_input.csv",
out="mut_fasta.fa",
k=4,
seq_id_column="Chromosome",
mut_column="Mutation",
gtf="genome_annotation.gtf",
gtf_transcript_id_column="Ensembl_Transcript_ID",
optimize_flanking_regions=True,
update_df=True,
update_df_out="mutations_updated.csv",
store_full_sequences=True,
translate=True,
translate_start="Translate_Start",
translate_end="Translate_End"
)
```
→ Toma un genoma fasta ('genome_reference.fa') y un archivo gtf ('genome_annotation.gtf') (estos se pueden descargar usando [`gget ref`](ref.md)), así como un archivo 'mutations_input.csv' que contiene:
```
| Chromosome | Mutation | Ensembl_Transcript_ID | Translate_Start | Translate_End |
|------------|-------------------|------------------------|-----------------|---------------|
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