All pages
Jump to navigation
Jump to search
- 1000Bulls mapping pipeline at ABGC
- ABGC Journal Club
- ABGC bioinformatics
- ABGC lab
- ABGC modules
- ABGC secretariat
- ABGSA
- ANGSD 0.614
- About ABGC
- Access Policy
- Agrogenomics Cluster
- Allpathslg 48961
- Allpathslg 51910
- Animal Breeding and Genetics
- Anunna
- Apptainer
- Architecture of the HPC
- Array jobs
- AsAn
- Assemble mitochondrial genomes from short read data
- Assembly & Annotation
- Augustus 2.7
- B4F cluster
- BCData
- BCM on Anunna
- BCM on B4F cluster
- BCPlatforms
- BLAST
- Bedtools2.18
- Bioinformatics protocols ABG Chairgroup
- Bioinformatics tips tricks workflows
- Bioinformatics topics at ABG Chairgroup
- Blat v35
- Bowtie1 v1.0.0
- Bowtie2
- Bowtie2 v2.2.1
- Bwa 5.9
- Bwa 7.5
- CLC
- Calculate corrected theta from resequencing data
- Canu
- Cegma 2.4
- Checkpoint
- Checkpointing
- Command line tricks for manipulating fastq
- Computer cluster
- Conda for teaching
- Control R environment using modules
- Convert between MediaWiki and other formats
- Convert fastq to fasta
- Cost alerting
- Courses
- Create shortcut log-in command
- Creating sbatch script
- Cuda
- Cufflinks
- DE expression
- DMTCP
- Dmtcp
- Domain specific software on B4Fcluster installation by users
- Downtime
- Environment Modules
- Events
- Exonerate 2.2.0
- Extract noncall snps from soy
- Fastq
- File transfer
- Filesystems
- Geneid 1.4.4
- Genetics and Genomics
- Genewise 2.2.3
- Genomics Journal Club
- Get my bill
- Globally installed software
- HPC management
- Hadoop
- Hints for courses
- History of the Cluster
- Hmmer
- Hmmer 3.1
- Installation by users
- Installed software
- Installing R packages locally
- Installing WRF and WPS
- Issues asreml
- JBrowse
- Jellyfish 2.1.1
- Jupyter
- JupyterHub with GPU
- List of users
- Log in to Anunna
- Log in to B4F cluster
- Lustre PFS layout
- Lx6 and Lx7 compute nodes
- MAFFT 7.130
- MPI on B4F cluster
- Mailinglist
- Main Page
- Maintenance and Management
- Maker 2.2.8
- Maker protocols Pmajor
- Making slices from BAM files
- Manual GitLab
- Mapping Pair-end reads with Stampy
- Mapping and variant calling pipeline
- Mapping reads with Mosaik
- Matlab
- Meetings
- Migration from ESG HPC
- Modules
- Monday Genome Meeting
- Monitoring executions
- Monitoring job execution
- Muscle 3.8.31
- Nanopore assembly and variant calling
- New page
- Newpage
- Node usage graph
- Obfuscating runs
- Old binaries
- Parallel R code on SLURM
- Plink 1.07
- Plink 1.9
- Population mapping pipeline
- Population structural variant calling pipeline
- Population variant calling pipeline
- Provean 1.1.3
- Provean Sus scrofa
- Putty SSH Tunnelling
- Quantitative genetics
- Quantitative genetics protocols ABG Chairgroup
- R
- RAxML
- RAxML8.0.0
- RNA-seq analysis
- RepeatMasker 4.0.3
- RepeatModeler 1.0.7
- Reservations
- Roadmap
- Running Snakemake pipelines
- Running scripts on a fixed timeschedule (cron)
- SACCT
- SLURM Compare
- SLURM on B4F cluster
- SSH tunnel to a certain node
- Samtools
- Samtools v0.1.12a
- Samtools v0.1.19
- Services
- Setting TMPDIR
- Setting local variables
- Setting up Python virtualenv
- Setup Printers on Ubuntu Machines
- Setup Stampy on your Linux/Unix machine
- Setup Stampy on your Linux/Unix machine and mapping Pair-end reads
- Setup Stampy on your machine
- Setup printer on Ubuntu Machines
- Shared folders
- Short read mapping pipeline pig
- Single Cell preprocessing pipeline
- Snap
- Soapdenovo2 r240
- Software
- Spark
- Sra toolkit 2.3.4
- Ssh without password
- Steps for courses
- Submit job with qsub
- Super computer
- Tariffs
- TopHat 2.0.11
- Trinity
- Trinity r20131110
- Using Slurm
- Using conda to install a new kernel into your notebook
- Using environment modules
- VSCode to Jupyter
- Variant annotation tutorial
- Virtual environment Python 3.4 or higher
- Virtualenv
- Wgs assembler 8.1
- Whole genome alignment pipeline