Truwl

BETA
Home / Tools / STAR alignReads / STAR:2.5.1b:a516f5a4
STAR:2.5.1b:a516f5a4
0

Back

Overview
Runs a STAR mapping job. Creates alignments to the genome and transcriptome with associated log files.
Usage
STAR --runMode alignReads --alignIntronMax 1000000 --alignIntronMin 20 --alignMatesGapMax 1000000 --alignSJoverhangMin 8 --genomeDir ../FileInputs/Generated/prepOut--genomeLoad NoSharedMemory --limitBAMsortRAM 60000000000 --outFilterMismatchNmax 999 --outFilterMismatchNoverReadLmax 0.04 --outFilterMultimapNmax 20 --outFilterType BySJout --outSAMheaderCommentFile COfile.txt --outSAMheaderHD @HD VN:1.4 SO:coordinate --outSAMtype BAM SortedByCoordinate --outSAMunmapped Within --quantMode TranscriptomeSAM --readFilesCommand zcat --readFilesIn ENCFF107OTF_Chr22.fastq.gz ENCFF378NQQ_Chr22.fastq.gz --runThreadN 1 --outSAMattributes NH HI AS NM MD