Bam file not generated using speedseq align

hall-lab / speedseq

A flexible framework for rapid genome analysis and interpretation

MIT License

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Open kghimire09 opened 3 years ago

kghimire09 commented 3 years ago

Hi I Used this command: speedseq align \

-o 5863-DD-3 \ -R "@RG\tID:5863-DD-3\tSM:5863-DD-3\tLB:ILLUMINA" \ assembly38.fasta \ 5863-DD-3-R1_001.fastq.gz \ 5863-DD-3-R2_001.fastq.gz

I have the discordant and splitters bams but I do not have the main bam file. Could you please help me with this.

Thank you