Hi!
Having some trouble with bowtie2 rn
Using public data from an encode entry for my course project and can get past this error:
readU: Success
(ERR): bowtie2-align exited with value 1
Here is my code:
bowtie2-build chm13v2.0.fa.qz chm13v2_bt2
bowtie2 -x chm13v2_bt2 -1 ENCFF025YQV.fastq.gz -2 ENCFF572GPA.fastq.gz | awk '$2 != 4 {print}' | samtools view -S -b '-' > NUFIP1_CHiPseq_PE_output.bam
Also tried running simplified version, but some error result:
bowtie2 -x chm13v2_bt2 -1 ENCFF025YQV.fastq.gz -2 ENCFF572GPA.fastq.gz -S NUFIP1_CHiPseq_PE_output.sam
Does anyone have any ideas?
Thank you
Having some trouble with bowtie2 rn
Using public data from an encode entry for my course project and can get past this error:
readU: Success
(ERR): bowtie2-align exited with value 1
Here is my code:
bowtie2-build chm13v2.0.fa.qz chm13v2_bt2
bowtie2 -x chm13v2_bt2 -1 ENCFF025YQV.fastq.gz -2 ENCFF572GPA.fastq.gz | awk '$2 != 4 {print}' | samtools view -S -b '-' > NUFIP1_CHiPseq_PE_output.bam
Also tried running simplified version, but some error result:
bowtie2 -x chm13v2_bt2 -1 ENCFF025YQV.fastq.gz -2 ENCFF572GPA.fastq.gz -S NUFIP1_CHiPseq_PE_output.sam
Does anyone have any ideas?
Thank you