stream
Link to section 'Introduction' of 'stream' Introduction
STREAM
(Single-cell Trajectories Reconstruction, Exploration And Mapping) is an interactive pipeline capable of disentangling and visualizing complex branching trajectories from both single-cell transcriptomic and epigenomic data.
Docker hub: https://hub.docker.com/r/pinellolab/stream and its home page on Github.
Link to section 'Versions' of 'stream' Versions
- 1.0
Link to section 'Commands' of 'stream' Commands
- python
- python3
Link to section 'Module' of 'stream' Module
You can load the modules by:
module load biocontainers
module load stream
Link to section 'Example job' of 'stream' Example job
Using #!/bin/sh -l
as shebang in the slurm job script will cause the failure of some biocontainer modules. Please use #!/bin/bash
instead.
To run STREAM on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=stream
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers stream