Results for "NGS READGROUPS GATK FastQ"
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Webinar on RNA-Seq Data Analysis on 28 Feb 2018
Strand NGS is a biologist friendly NGS analysis tool that allows biologists to anal...ing events and gene fusion detection. Strand NGS also s...unctions.We will highlight the use of Strand NGS...the RNA-Seq data analysis workflow in Strand NGS....2303 days ago
- To remove all line ends (\n) from a...unmapped.sam To gzip all your fastq files using gnu parallel and gzip: parallel gzip ::: *.fastq To gzip all your fastq files...*.gz To count reads in a all .fastq.gz files in your current fold...sed 's/\t/\n/g' > filtered.fastq To print difference between...
2256 days ago
- $ sudo apt-get install python-numpy python-scipy pyt...tions: Namespace(fasta='test/contigs.fa', fast...ing fc-list. This may take a moment. warnings.warn('Matplotlib is building th...rt size statistics Mates orientation statsFastQ files read length median mean...
2229 days ago
Learning Python Programming - a bioinformatician perspective !
Python Programming is a general purpose programming language that...nd packages of python which are widely used in the big data, NGS,...will also walk through a real biological example which shows NGS d...2222 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...2221 days ago
LINKS scaffolder bloomfilter setting !
➜ bin git:(master) ✗ ls -l total 68 drwxrwxr-x 3 urbe urbe 4096 Jun 15 12:15 lib...enames, full path to long sequence reads or MPET pairs [see below] (Multi-FASTA/fastq format, required) -m MPET r...2190 days ago
My commonly used commands in Bioinformatics
FYI, I've found it useful to use MUMmer to extract the specific changes tha...n evaluate them individually: minimap -t 24 assembly.fasta long_reads.fastq.gz | racon -t 24 long_reads.fastq.gz - assembly.fasta racon_ass...2149 days ago
List of non-commercial NGS genotype-calling software
Meaningful analysis of next-generation sequencing (NGS) data, which are produced extensively...abase (for example, dbSNP) Package for NGS data a...gned reads Package for manipulation of NGS alignments, which includes a c...d SNP and genotype calling (bcftools) GATK...2135 days ago
Bioinformatics Services / CRO Services
RASA is set to provide premium technical and scientific services in a form of solutions, pr...evelopment services in life science informatics field like Next Generation Sequencing (NGS)...1681 days ago
Frequent parameters for bioinformatics tools !
Third party executable parameters and options. Trimmomatic &ldqu... Filtlong --min_length 500 --min_mean_q 85 --min_window_q 65 FastQ Screen --aligner bowtie2' (b...1325 days ago
