EDIT

Data file and content editing

Program name	Description
aligncopy	Read and write alignments
aligncopypair	Read and write pairs from alignments
biosed	Replace or delete sequence sections
codcopy	Copy and reformat a codon usage table
cutseq	Remove a section from a sequence
degapseq	Remove non-alphabetic (e.g. gap) characters from sequences
descseq	Alter the name or description of a sequence
entret	Retrieve sequence entries from flatfile databases and files
extractalign	Extract regions from a sequence alignment
extractfeat	Extract features from sequence(s)
extractseq	Extract regions from a sequence
featcopy	Read and write a feature table
featmerge	Merge two overlapping feature tables
featreport	Read and write a feature table
feattext	Return a feature table original text
listor	Write a list file of the logical OR of two sets of sequences
makenucseq	Create random nucleotide sequences
makeprotseq	Create random protein sequences
maskambignuc	Mask all ambiguity characters in nucleotide sequences with N
maskambigprot	Mask all ambiguity characters in protein sequences with X
maskfeat	Write a sequence with masked features
maskseq	Write a sequence with masked regions
newseq	Create a sequence file from a typed-in sequence
nohtml	Remove mark-up (e.g. HTML tags) from an ASCII text file
noreturn	Remove carriage return from ASCII files
nospace	Remove whitespace from an ASCII text file
notab	Replace tabs with spaces in an ASCII text file
notseq	Write to file a subset of an input stream of sequences
nthseq	Write to file a single sequence from an input stream of sequences
nthseqset	Read and write (return) one set of sequences from many
pasteseq	Insert one sequence into another
revseq	Reverse and complement a nucleotide sequence
seqcount	Read and count sequences
seqret	Read and write (return) sequences
seqretsetall	Read and write (return) many sets of sequences
seqretsplit	Read sequences and write them to individual files
sizeseq	Sort sequences by size
skipredundant	Remove redundant sequences from an input set
skipseq	Read and write (return) sequences, skipping first few
splitsource	Split sequence(s) into original source sequences
splitter	Split sequence(s) into smaller sequences
trimest	Remove poly-A tails from nucleotide sequences
trimseq	Remove unwanted characters from start and end of sequence(s)
trimspace	Remove extra whitespace from an ASCII text file
union	Concatenate multiple sequences into a single sequence
vectorstrip	Remove vectors from the ends of nucleotide sequence(s)
yank	Add a sequence reference (a full USA) to a list file
seqfraggle	Remove fragment sequences from DHF files