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454_tag_sorting

Script for finding paired tags ("Binladen tags") in 454 data

abc.se

My abc.se web page

acc2tax

Tool for quick offline batch conversion of Genbank IDs or accessions to taxonomy strings

agat

Another Gff Analysis Toolkit

alibaseq

Alignment-Based Sequence extraction

align-and-trees-parallel-workflow

Script for running a "standard" phylogenetic workflow on fasta-formatted input. In particular, parallel execution is done whenever possible.

awesome

My settings for the tiling windows manager "awesome"

bbb

Class-room Linux Server on the BeagleBone Black

beast2phy

Convert output trees from BEAST to other formats

bioconda-recipes

Conda recipes for the bioconda channel.

birdscanner2

bp2mb

Convert trees from Pagel's BayesPhylogenies to MrBayes format

burntrees

Perl scripts for manipulating output from phylogenetic MCMC software (MrBayes, BEAST, PhyloBayes, etc)

catfasta2phyml

Concatenates FASTA formatted files to one "phyml" (PHYLIP) formatted file

check_md5sums

Check md5 sums for all .md5 and MD5SUMS files found in directory tree

compare_two_files

Compare the content of two files (line by line)

consensus-sequence

dds_cli

The command line interface for access to the Data Delivery System primarily developed by the SciLifeLab Data Centre.

diva-dispersal-vicariance-analysis

Downloaded from SourceForge

earth-biogenome-project-pilot

Assembly and Annotation workflows for analysing data in the Earth Biogenome Project pilot project.

easy_webshare_on_uppmax

Easy file sharing on UPPMAX

efasta2fasta

Convert extended fasta (efasta) to fasta

exercise_for_working_with_stderr_and_stdin

Simple exercise for working with STDERR, STDIN, and transferring files from and to a server

fasta-tab

Convert fasta to tab, and back

fasta2mlcalc

Create a distance matrix for Paul Lewis's MLCalc program from a fasta-formatted sequence file

fastagap

Remove or replace gaps in fasta formatted files

fastear

FastEAR - Fast(er) Extraction of Alignment Regions from FASTA

fastp-cleaning

Clean fastq files with fastp

gaas

Genome Assembly and Annotation Service code

get_fasta_info

Some useful summary tools for FASTA formatted files