TOBIAS 0.13.3-foss-2021b
TOBIAS is a collection of command-line bioinformatics tools for performing footprinting analysis on ATAC-seq data, and includes: Correction of Tn5 insertion bias; Calculation of footprint scores within regulatory regions; Estimation of bound/unbound transcription factor binding sites; and Visualization of footprints within and across different conditionsAccessing TOBIAS 0.13.3-foss-2021b
To load the module for TOBIAS 0.13.3-foss-2021b please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):
module load TOBIAS/0.13.3-foss-2021b
BEAR Apps Version
Extensions
- configs 3.0.3
- kneed 0.7.0
- logomaker 0.8
- MOODS-python-1.9.4.1
- PyPDF2 1.26.0
- reportlab 3.6.2
- statistics 1.0.3.5
- svist4get 1.2.24
- TOBIAS 0.13.3
- Wand 0.6.7
More Information
For more information visit the TOBIAS website.
Dependencies
This version of TOBIAS has a direct dependency on: adjustText/0.7.3-foss-2021b Biopython/1.79-foss-2021b boto3/1.20.13-GCCcore-11.2.0 foss/2021b ImageMagick/7.1.0-4-GCCcore-11.2.0 pybedtools/0.8.2-GCC-11.2.0 pyBigWig/0.3.18-foss-2021b Pysam/0.17.0-GCC-11.2.0 Python/3.9.6-GCCcore-11.2.0 PyYAML/5.4.1-GCCcore-11.2.0 scikit-learn/1.0.1-foss-2021b SciPy-bundle/2021.10-foss-2021b Seaborn/0.11.2-foss-2021b XlsxWriter/3.0.2-GCCcore-11.2.0
Last modified on 23rd August 2022