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Tools to Predict the Impact of Missense Variants !
Prioritizing missense variants for further experimental investigation is a key challenge in current sequencing studi...ter‐2, MutationAssessor, Combined Annotation Dependent Deplet...t of an amino acid substitution on the structure and function...h coding variants, that is, nonsynonymous single‐nucleotide v...2255 days ago
Binding Site Prediction in Protein !
The interaction between proteins and other molecules is fundamental to all biological functions. In this section we include tools that can ass...face-mapping of phylogenetic information CRESCENDO...taPocketA meta server for ligand-binding site prediction. met...2254 days ago
Protein-Protein Interaction Sites Predictions !
The study of Protein–Protein Interactions (PPIs) has a crucial role in biology, medicine and the pharmaceutical indus...HOMCOS A server to predict interacting protein pairs and in...r for predicting soft metal binding sites in proteins DBD-Hu...2254 days ago
Ligand Docking Tools and Software !
Ligand docking referred to cases where small molecule (“ligand”) is being docked into much larger macromolecule (...Systematic (RBD)Flexible ligandChemScore, PLP, ScreenScore,...more suitable in a specific context is difficult. We encourag...2254 days ago
Tools for Protein-Protein Docking !
Predicting the structure of protein–protein complexes using docking appro...h molecular flexibility and conformational changes. Following...protein surface representation for soft docking Shape compl...ns around selected conformations PatchDock Global rigid sea...2254 days ago
- $ sudo apt-get install python-numpy python-scipy python-matplotlib ipython ipython-notebook python-pandas python-sympy python-nose[s...libdsdp-5.8gf amd64 5.8-9.1ubuntu2 [192 kB]Get:35 http://be.a...thon-jinja2 (2.8-1) ...Selecting previously unselected packag...
2242 days ago
Creating conda environment for python2.7
TIP: By default, environments are installed into the envs directory in your conda directory. Run conda create -...y time you create a new environment. If you do not want the d...################# | 100% python 2.7.15: #####################...2242 days ago
Learning Python Programming - a bioinformatician perspective !
Python Programming is a general purpose programming language that is open source, fle...cessing and analytics tasks. In the current era of big biolog...python which are widely used in the big data, NGS, and bioinf...integrated with other, existing tools It has features which...2234 days ago
Convert VCF to tab-deilimited table
Performed with GATK : java -Xmx8g -jar GenomeAnalysisTK.jar \ -T VariantsToTable \ -R reference.fa \ -V reference_genomes_GT.vcf \ -F CHROM -F POS -F REF -F ALT -GF GT \ -o reference_genomes_GT.table multiple_sample...2234 days ago
Frequent Paired-end reads (PE 2x100) mapping command lines
...q -2 r2.fq -S r12.bowtie2.sam bwa aln hs37m.fa r1.fq > r1.sai && bwa aln hs37m.fa r2.fq > r2.sai \...2.fq > r12.bwa.sam bwa bwasw ../index/bwa/hs37m.fa r12.fq > r...am -M r1.fq,r2.fq soap -D hs37m.fa.index -a r1.fq -b r2.fq -l 32 -g...2234 days ago
