KO
|
EN
gitlite — search
Search
#python
#cli
#react
#llm
#api
#go
#pytorch
#mcp-server
#data-science
#markdown
#ai
#ml
fastascripts
★ 29
Open GitHub ↗
Manipulate FASTA files
Download README (.md)
Explore Similar Repositories
siguza.github.io
:
Siguza's Blog
gmailR
:
send email with attachments in R
neural
:
NIF based erlang shared term storage
Bukkit-JavaDoc
:
The Minecraft Mod API
bind
:
Boost.org bind module
// repository documentation
Was this content helpful?
★ 0
(0 ratings)
Select Rating:
★
★
★
★
★
Submit Feedback
Recent Feedback
×
Download README
Do you want to download the
README.md
file for
fastascripts
?
Download (.md)
fastascripts – Manipulate FASTA files ===================================== These scripts were never meant to see the light of day. I apologize for the distasteful code. Utilities ========= * `facanon` Output the lexicographically smaller of the sequence and its reverse complement * `facat` Concatenate FASTA files and add a prefix to the identifier * `fachain` Merge overlapping sequences * `faclean` Reformat and optionally remove short contigs from a FASTA file * `facmp` Compare pairs of sequences * `facstont` Convert colour-space sequence to nucleotides * `fadecimate` Randomly keep 1 in every N pairs of reads * `faget` Select sequences from a FASTA file by identifier * `fagrep` Search a FASTA file using a regular expression * `fakmer` Generate tiled k-mers * `falength` Print the lengths of sequences * `falint` Check the syntax of a FASTA file * `famd5` Calculate a MD5 digest for a FASTA file * `famd5seq` Calculate a MD5 digest for each sequence * `fanttocs` Convert nucleotides to colour-space sequence * `farand` Generate a FASTA file with random sequence * `farc` Reverse and complement the sequences * `farenumber` Renumber the sequences * `faseperate-mates` Separate paired reads into two files * `fasplit-read` Split a read into two at the midpoint * `fastqtofa` Convert a FASTQ file to FASTA format * `fatoagp` Convert FASTA scaffolds to FASTA contigs and an AGP file * `fatofastq` Convert a FASTA file to a FASTQ file * `fatoseq` Remove FASTA headers * `faunamb` Convert IUPAC-IUB ambiguity codes to ACGT * `faunscaffold` Break scaffolds into contigs at Ns License ================================================================================ Copyright 2013 Shaun Jackman ### [ISC License][] Permission to use, copy, modify, and/or distribute this software for any purpose with or without fee is hereby granted, provided that the above copyright notice and this permission notice appear in all copies. [ISC License]: http://opensource.org/licenses/ISC
