Results for "benchmarking and designing tools"
Bio-Scripts
Install Parrot Virtual Machine !
#Parrot is a virtual machine designed to efficiently compile and execute bytecode for dynamic...the `--ask' flag on the command line, in which case I'll prom...hints - Load platform and local hints files...............- Are coverage analysis tools installed...Negative repeat c...1536 days ago
Long reads mapper bash script !
...scrip to map your long reads and make it visualization ready !" #Location of the tools samtools=/home/urbe/anaconda3/bin/samt...echo "Unknown mapper name and parameter !" fi echo "Get...ady for visualization !" $samtools view -Sb $fileName.out.sam |...2122 days ago
- ➜ BorisTrinityAssembly /home/urbe/Tools/transrate-1.0.3-linux-x86_6...ob Patro, Julian Hibberd, and Steve Kelly DESCRIPTION:...read mapping based (if --left and --rig...Show some example commands with explanations ➜ BorisTrinityAssembly /home/urbe/Tools/transrate-1.0.3-linux-x86_64/...
2122 days ago
Installing Porechop on Ubuntu !
➜ Tools git:(master) ✗ git clone https://github.com/rrwick/Porechop.git...one. Checking connectivity... done. ➜ Tools git...pore reads, trimming them from the ends and spli...are saved to a file and stderr if reads are printed...2105 days ago
- set -e echo "Running reapr version 1.0.18 pipeline:" echo "/home/urbe/Tools/Reapr_1.0.18/reapr Wadineta...Running facheck" /home/urbe/Tools/Reapr_1.0.18/reapr facheck Wa...C027568.151120_Adineta_Nature_and_Habrotrocha.160226.HiSeq2000.FC...C027568.151120_Adineta_Nature_and_Habrotrocha.160226.HiSeq2000.FC...
2098 days ago
- ...e been written to: /home/urbe/Tools/nextsv/aligners_and_callers/Sniffles-1.0.5/build S...s-2.3.0/src/api/CMakeFiles/BamTools-static.dir/internal/bam/BamRandomAccessController_p.cpp.o [ 31.../VCFPrinter.cpp.o /home/urbe/Tools/nextsv/aligners_and_callers/S...
2098 days ago
- ...ES/FILE gatk forwards commands to GATK and adds some sugar for submittin...Reads a SAM or BAM file and rewrites it with new adapter-tr...that pass quality thresholds and Illumina-specific filters....Tools that analyze and manipulate F...
2074 days ago
- ➜ upgrade_oh_my_zsh Updating Oh My Zsh remote: Counting objects...| 4 +- plugins/command-not-found/command-not-found.plugin.zsh | 2 +...| 2 +- plugins/urltools/urltools.plugin.zsh...| 2 - themes/lukerandall.zsh-theme...
2074 days ago
Installing pb-assembly on Linux !
...MCL/14.137-foss-2016a cctools/5.2...SAMtools/1.3.1-foss-2016a HDF5/1.8.16...n@hmem00 ~]$ conda install samtools Fetching package metadata .....e: 0:00:00 21.90 MB/s pbcommand-1.1. 100% |####################...py27_1 conda-forge samtools 1.9...2033 days ago
- #http://www.nupack.org/downloads/source ➜ tools git:(master) ✗ cd nupack3.0...red/constants -c -o ReadCommandLineNPK.o ReadCommandLineNPK.c ReadCommandLineNPK.c:...Leaving directory '/home/urbe/Tools/nupack3.0.6/nupack3.0.6/src/t...Leaving directory '/home/urbe/Tools/nupack3.0.6/nupack3.0.6/src/t...
2025 days ago
