Results for "fastq"
Top-level pages
...ample.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...25' | sed 's/\t/\n/g' > filtered.fastq To print difference between...2217 days ago
- ...test/contigs.fa -o test/run1Options: Namespace(fasta='test/contigs.fa', fastq=['test/5000_1.fq.gz', 'test/5...19504 mates per library...Insert size statistics Mates orientation statsFastQ files read length median mean...
2190 days ago
LINKS scaffolder bloomfilter setting !
...quences to scaffold (Multi-FASTA format, required) -s file-of-filenames, full path to long sequence reads or MPET pairs [see below] (Multi-FASTA/fastq format, required) -m MPET r...2151 days ago
My commonly used commands in Bioinformatics
...r to extract the specific changes that Racon makes, so I can evaluate them individually: minimap -t 24 assembly.fasta long_reads.fastq.gz | racon -t 24 long_reads.fastq.gz - assembly.fasta racon_ass...2110 days ago
Frequent parameters for bioinformatics tools !
...DOW:4:20” “MINLEN:20” “TOPHRED33” Filtlong --min_length 500 --min_mean_q 85 --min_window_q 65 FastQ Screen --aligner bowtie2' (b...1286 days ago
Short-read assembly using Spades !
...is here, or try it later on your own data. Get data We will use the same Illumina data as we used above: illumina_R1.fastq.gz: the Illumina forward reads illumina_R2.fastq.gz: the Illumina reverse read...825 days ago
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