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GitHub / Hajibabaei-Lab / SCVUC_COI_metabarcode_pipeline
Snakemake bioinformatic pipeline to process COI mtDNA metabarcodes
Stars: 1
Forks: 1
Open Issues: 0
License: gpl-3.0
Language: Perl
Repo Size: 352 KB
Dependencies:
361
Created: almost 5 years ago
Updated: almost 4 years ago
Last pushed: almost 4 years ago
Last synced: about 1 year ago
Topics: bioinformatics, co1, coi, metabarcoding
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Dependencies
environment.yml
conda
- _libgcc_mutex 0.1
- _r-mutex 1.0.0
- aioeasywebdav 2.4.0
- aiohttp 3.6.2
- appdirs 1.4.3
- asn1crypto 1.2.0
- async-timeout 3.0.1
- attrs 19.3.0
- bcrypt 3.1.7
- binutils_impl_linux-64 2.31.1
- binutils_linux-64 2.31.1
- biopython 1.76
- blas 1.0
- bwidget 1.9.11
- bz2file 0.98
- 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
- clustalw 2.1
- cryptography 2.8
- curl 7.65.3
- cutadapt 2.6
- cyrus-sasl 2.1.26
- dbus 1.13.12
- decorator 4.4.0
- dnaio 0.3
- docutils 0.15.2
- dropbox 5.2.1
- ecdsa 0.13
- emboss 6.6.0
- expat 2.2.6
- fasttree 2.1.10
- filechunkio 1.6
- font-ttf-dejavu-sans-mono 2.37
- font-ttf-inconsolata 2.001
- font-ttf-source-code-pro 2.030
- font-ttf-ubuntu 0.83
- fontconfig 2.13.0
- fonts-anaconda 1
- freetype 2.9.1
- fribidi 1.0.5
- ftputil 3.2
- gblocks 0.91b
- gcc_impl_linux-64 7.3.0
- gcc_linux-64 7.3.0
- gfortran_impl_linux-64 7.3.0
- gfortran_linux-64 7.3.0
- giflib 5.1.4
- glib 2.56.2
- gmp 6.1.2
- graphite2 1.3.13
- graphviz 2.40.1
- gsl 2.4
- gst-plugins-base 1.14.0
- gstreamer 1.14.0
- gxx_impl_linux-64 7.3.0
- gxx_linux-64 7.3.0
- gzip 1.7
- harfbuzz 1.8.8
- hmmer 3.3
- icu 58.2
- idna 2.8
- idna_ssl 1.1.0
- intel-openmp 2019.4
- itsx 1.1b
- java-jdk 7.0.91
- jpeg 9b
- krb5 1.16.1
- libcurl 7.65.3
- libdb 6.1.26
- libedit 3.1.20181209
- libffi 3.2.1
- libgcc 7.2.0
- libgcc-ng 9.1.0
- libgd 2.2.5
- libgfortran 3.0.0
- libgfortran-ng 7.3.0
- libntlm 1.5
- libopenblas 0.3.6
- libpng 1.6.37
- libsodium 1.0.16
- libssh2 1.8.2
- libstdcxx-ng 9.1.0
- libtiff 4.0.10
- libuuid 1.0.3
- libwebp 1.0.1
- libxcb 1.13
- libxml2 2.9.9
- libxslt 1.1.33
- mafft 7.455
- make 4.2.1
- mkl 2019.4
- mkl-service 2.3.0
- mkl_fft 1.0.15
- mkl_random 1.1.0
- multidict 4.5.2
- ncurses 6.1
- numpy 1.17.4
- numpy-base 1.17.4
- openjdk 8.0.152
- openssl 1.1.1d
- paml 4.9
- pandas 0.25.3
- pandoc 2.2.3.2
- pango 1.42.4
- parallel 20190722
- paramiko 1.18.4
- pcre 8.43
- perl 5.26.2
- perl-aceperl 1.92
- perl-algorithm-diff 1.1903
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- perl-apache-test 1.40
- perl-app-cpanminus 1.7044
- perl-appconfig 1.71
- perl-array-compare 3.0.1
- perl-autoloader 5.74
- perl-base 2.23
- perl-bio-asn1-entrezgene 1.73
- perl-bio-coordinate 1.007001
- perl-bio-eutilities 1.75
- perl-bio-featureio 1.6.905
- perl-bio-phylo 0.58
- perl-bio-samtools 1.43
- perl-bio-tools-phylo-paml 1.7.3
- perl-bio-tools-run-alignment-clustalw 1.7.4
- perl-bio-tools-run-alignment-tcoffee 1.7.4
- perl-bioperl 1.7.2
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