I'm trying to use freebayes to call variants through the following parameters : freebayes -f $REF -r $REGIONS -b 03.align/$FQ.align.sort.marked.bam > 04.freebayes/$FQ.var.vcf The error reports: …

I'm trying to use freebayes to call variants through the following parameters using RNA-Seq data: ``` $freebayes --fasta-reference $ref \ --region $BED \ $bam \ …

Hello, I am using freebayes for making vcf files using: RUN=${SLURM_ARRAY_TASK_ID} LIST_OF_BAMS=/path/list_of_bam.txt freebayes -f /path/genome.fasta -L ${LIST_OF_BAMS} > /path/all_SNPs_pt${SLURM_ARRAY_TASK_ID}.vcf But it gives this error: unable …

Hey, I have a sorted and indexed .bam file, and I am running it through freebayes, with the script : freebayes -f ref.fa -@ in.vcf.gz …

Hey, I have a sorted and indexed .bam file, and I am running it through freebayes, with the script : freebayes -f ref.fa -@ in.vcf.gz …

Hey, I have a sorted and indexed .bam file, and I am running it through freebayes, with the script : freebayes -f ref.fa -@ in.vcf.gz …

Hey all, I have a sorted and indexed .bam file, and I am running it through freebayes, with the script : "freebayes -f /path/to/reference.fasta Bamfile.bam …

I'm trying to use freebayes but I keep running into this problem. Does anyone know who to fix this? I was looking at [this][1] tutorial …

How to fix FreeBayes error: Fatal error: Exit code 1 () unable to find FASTA index entry for 'CP003248.2'

Hi all, I was trying to use PAML (codeml) to calculate dn/ds i converted aligned fasta file to phylip format. but it keeps giving me …