Computational resources for TE discovery and TE detection
.../bioinf.dimi.uniud.it/software/software/smartfinder Tandem Repeats Finder http://tandem.bu.edu/trf/trf.html Transposon Cluster Finder http://www.mssm.edu/labs/warbup01/paper/fil...2289 days ago
Webinar on RNA-Seq Data Analysis on 28 Feb 2018
...vel genes, exons and novel splice junctions.We will highlight the use of Strand NGS features such as PCA, sample correlation, clustering, Venn diagrams, CVA, UMI support and elastic...2279 days ago
Bioinformatics tools to detect horizontal gene transfer (HGT) in genomes
...T), the “non-sexual movement of genetic material between two organisms” , is relatively common...r the host nucleus, integrate into the genome, and in more complex organisms it must enter the sequestered...865 days ago
Python learning resources for bioinformatics and computational biologist !
...PDF, EPUB, Mobi) Building Machine Learning Systems with Python - Willi Rich...matic Python CodeCademy Python Composing Programs (3.x) Data Structures a...ffrey Elkner (PDF) Problem Solving with Algorithms and Data Structures using Pyt...2270 days ago
Some useful Bioinformatics links
...ce alignment program https://mafft.cbrc.jp/alignment/software/algorithms/algorithms.html Measuring the distance b...imeras in my de novo assembly? - SEQanswers http://seqanswers.com/forums/showthread.php?t=26721 samtoo...2256 days ago
Tools to Predict the Impact of Missense Variants !
...r (MASS)“Predicts the functional impact of amino acid substitutions in proteins, such as mutations discovered in cancer or missense polymorphisms” LRT“Identify a...2218 days ago
Ligand Docking Tools and Software !
...xible targetAUTODOCK (empirical) FRED Systematic (RBD)Flexible ligandChemScore, PLP, ScreenScore, ChemGa...ochastic (GA) Flexible ligand and partially flexible targetGoldScore, ChemScore (empirical), ASP (knowled...2217 days ago
Tools for Protein-Protein Docking !
...search: Fourier correlation of spherical harmonics Shape complementarity HADDOCK Global rigid searchElectrostatic ,VDW and desolvation energy termsMD simulated annealing refinem...2217 days ago
Creating conda environment for python2.7
...v python=3.4 scipy=0.15.0 astroid babel TIP: Install all the programs that you want in this environ...er program every time a new environment is created, add the default programs to the create_default_pa...2205 days ago
Frequent Paired-end reads (PE 2x100) mapping command lines
...7m r1.fq r2.fq > r12.gsnap.sam novoalign -r Random -o SAM -f r1.fq r2.fq -i 500 50 -d hs37m-k14s3.novo > r12.novo.sam smalt map -f samsoft -i 650 -o r12.smalt-k20s13...2197 days ago