dfToFasta: Write a fasta file of sequences 'readFasta' reads a fasta...
In dowser: B Cell Receptor Phylogenetics Toolkit

View source: R/TreeFunctions.R

dfToFasta

R Documentation

Write a fasta file of sequences `readFasta` reads a fasta file

Description

Write a fasta file of sequences readFasta reads a fasta file

Usage

dfToFasta(
  df,
  file,
  id = "sequence_id",
  seq = "sequence",
  imgt_gaps = FALSE,
  columns = NULL
)

Arguments

`df`	dataframe of sequences
`file`	FASTA file for output
`id`	Column name of sequence ids
`seq`	Column name of sequences
`imgt_gaps`	Keep IMGT gaps if present?
`columns`	vector of column names to append to sequence id

Value

File of FASTA formatted sequences

dowser documentation built on Nov. 5, 2025, 6:36 p.m.

dowser index

Package overview README.md Building trees with paired heavy and light chain data Build Lineage Trees Build Time Trees Using TyCHE and BEAST Discrete Trait Analysis Measurable evolution Plotting Lineage Trees Quickstart Reconstruct Clonal Germlines Reconstruct Intermediate Sequences Build B cell lineage trees Building trees with paired heavy and light chain data Build Time Trees Using TyCHE and BEAST Detect ongoing B cell evolution Discrete trait analysis Dowser: Simple lineage tree construction Plot B cell lineage trees Reconstruct clonal germline sequences Reconstruct intermediate sequences Using data from non-B cells

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