some daily used conda environments
conda config --add channels defaults
conda config --add channels bioconda
conda config --add channels conda-forge
make sure the conda-forge channel has the highest priority (the last one to be added), followed by bioconda channel.
In China, you can use the following channels instead:
conda config --add channels http://mirrors.ustc.edu.cn/anaconda/cloud/bioconda/
conda config --add channels http://mirrors.ustc.edu.cn/anaconda/cloud/conda-forge/
conda config --add channels https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/bioconda/
conda config --add channels https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge/
conda create -n jupyterlab jupyterlab biopython plotnine=0.4.0 seaborn ggplot rpy2 R xlrd ete3 easysvg beautifulsoup4 lxml html5lib cython
conda create -n ngsutils ngsutils
conda create -n python3.6 python=3.6
conda create -n python2.7 python=2.7
conda create -n R3.4 R=3.4
conda create -n aligner blast=2.7.1 MAFFT=7.313 clustalw tophat
bwa=0.7.8
conda create -n htslib Htslib=1.7 samtools=1.7 bcftools=1.7 bamtools=2.4.1 Picard=2.14
conda create -n seqtools skewer=0.2.2 vsearch=2.7.0 EMBOSS seqkit=0.8.0 biokit=0.4.2 fastx_toolkit sra-tools=2.8.2
conda create -n phylogenetic paml beast2 phylip=3.696 iqtree=1.5.5 circos=0.69.6 raxml=8.2.10
conda create -n assembler KmerGenie cap3 soapdenovo2 soapaligner soapcoverage soapdenovo2-errorcorrection soapdenovo2-gapcloser soapdenovo2-prepare Cufflinks obitools
conda create -n genetools busco=3.0.2 HMMer=3.1b2 exonerate=2.4.0 INFERNAL=1.1.2 tRNAscan-se=2.0 RAxML=8.2.10 ViennaRNA=2.4.4
conda create -n gatk4 gatk4
conda create -n galaxy-lib galaxy-lib=18.5.5
conda create -n maker maker
conda create -n mitozEnv libgd=2.2.4 python=3.6.0 biopython=1.69 ete3=3.0.0b35 perl-list-moreutils perl-params-validate perl-clone circos=0.69 perl-bioperl blast=2.2.31 hmmer=3.1b2 bwa=0.7.12 samtools=1.3.1 infernal=1.1.1 tbl2asn openjdk