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GitHub / luisacusick / VC-Optimus
Bioinformatics pipeline to take short reads, align them to a reference, and call SNPs.
JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/luisacusick%2FVC-Optimus
Stars: 0
Forks: 1
Open Issues: 6
License: None
Language: Perl
Repo Size: 138 KB
Dependencies:
270
Created: over 4 years ago
Updated: about 3 years ago
Last pushed: about 3 years ago
Last synced: about 1 year ago
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Dependencies
environment.yml
conda
- _libgcc_mutex 0.1
- _r-mutex 1.0.0
- argcomplete 1.11.1
- argh 0.26.1
- arrow 0.13.1
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- attrs 19.3.0
- backports 1.0
- backports.functools_lru_cache 1.6.1
- backports.shutil_get_terminal_size 1.0.0
- backports_abc 0.5
- bcbio-nextgen 1.1.6a
- bcftools 1.9
- beautifulsoup4 4.8.2
- bedtools 2.29.2
- binutils_impl_linux-64 2.33.1
- binutils_linux-64 2.33.1
- bioblend 0.12.0
- biopython 1.70
- blas 1.0
- boto 2.49.0
- bowtie2 2.3.5.1
- bwa 0.7.17
- bwidget 1.9.11
- bzip2 1.0.8
- ca-certificates 2020.1.1
- cairo 1.14.12
- certifi 2019.11.28
- cffi 1.13.2
- chardet 3.0.4
- click 7.1.2
- coloredlogs 10.0
- configparser 4.0.2
- contextlib2 0.6.0.post1
- coverage 5.0
- cryptography 2.8
- curl 7.67.0
- cycler 0.10.0
- cython 0.29.14
- cyvcf2 0.11.6
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- decorator 4.4.2
- distribute 0.6.45
- dnapi 1.1
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- gcc_impl_linux-64 7.3.0
- gcc_linux-64 7.3.0
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- numpy 1.12.1
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- olefile 0.46
- openjdk 8.0.152
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- packaging 20.3
- pandas 0.24.2
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- parallel 20160622
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