# Write the prefix of your raw fastq files (their name should be as follows: {data}_R1.fastq for the forward file and {data}_R2.fastq for the reverse file)
data: "Fonseca"

# Specify the value below which paired reads will not be considered for further analyses (default: 40)
pairing_quality: 40

# Specify the number of mismathches allowed when detecting primers (default: 2)
mismatch_primer: 2

# Specify the name given to negative and positive controls. If several controls have been done, only specify the common part of the name. Example: if your negative control are named Tneg1, Tneg2, and Tneg3, only write Tneg
Tneg: "Tneg"
Tpos: "Tpos"

# Specify maximum and minimum length for the sequences to be considered for further analyses.
length_min: 350
length_max: 450
# The values here are for 18S Fonseca. Change these values by 300 and 320 for COI Leray

# Specify required parameters for obiclean:
# Number of mismatch allowed for two sequences to be considered as "parent" in the graph (corresponds to D, default: 2)
# Maximum ratio that can be reached by a daughter sequence compared to its mother sequence to be considered as a sequencing error (corresponds to R, default: 0.05)
mismatch_obiclean: 2
pourcentage_obiclean: 0.025

# Specify the name of the database containing all the reference sequences (blastdb format format)
database: DB_18S

# Specify the name of the file containing taxonomical information 
taxo: taxo_file.csv

