HiDecode: decoding mutations from short-read sequencing data of pooled amplicons.

HiDecode is designed for large-scale mutation identification from one or two target-site-containing amplicons in a large number of samples using NGS. Various small mutations, including chimeric mutations, can be analyzed by HiDecode in diverse materials, such as diploid and polyploid organisms, culture cell lines, protoplasts, and calli. It not only can detect mutations from pooled amplicons, but also can identity mutations from amplicon of single sample. For testing the program, click download to obtain the test files.

 Input files

Step 1: input reference sequence in fasta format

Or input a reference file:

Step 2: input target sequence file (optional):

Step 3: input paired sequencing file (in #.fq.gz format)

Read1 file:		Read2 file:
Single sample (not a pooled amplicon)

Step 4: threshold setting :

(0.001-1.00)

 Barcode settings

Barcode type:   96xn barcode    12x8 barcode
 Using default barcodes of HiDecode

Select position barcode:

Select button

Select plate barcode:

Select button

 Define your barcodes

	Upload position barcode file:			Upload plate barcode file:
	Example_position_barcode.txt			Example_plate_barcode.txt
	Position-barcode position:			Plate-barcode position:
	Position-barcode length:			Plate-barcode length:

	Your email (optional):
	*In case the webpage is closed during the program's execution, it is recommended to enter a valid email address to receive the analysis results.