-
Notifications
You must be signed in to change notification settings - Fork 1
/
environment.yaml
61 lines (50 loc) · 876 Bytes
/
environment.yaml
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
# Conda configuration file to reproduce computing environment
#
# Create the conda environment:
#
# conda env create --file environment.yaml
#
# Update the conda environment:
#
# conda env update --file environment.yaml
#
# Activate the conda environment:
#
# source activate chromium
#
# Deactivate the conda environment:
#
# source deactivate chromium
#
# Resources:
name:
chromium
channels:
- bioconda
- conda-forge
- default
dependencies:
- deeptools
- picard
- subread
- pandoc
- fastqc
- snakemake
- umi_tools >= 0.5.1
- STAR >=2.7.3a-0
- samtools
- multiqc
- cutadapt
- pysam
- bcftools
- crossmap
- pandas
- numpy
- matplotlib
- r-essentials
- r-base
- r-optparse
- r-seurat
- bioconductor-dropletutils
- seqkit
- bedtools