AmpliMERGE - Amplicon Sequencing MERGing tool
AmpliMERGE merges paired-end reads from next-generation sequencing experiments.
Some NGS technologies can read amplicon sequences from both sides (covering partially or totally the amplified region) and retrieve paired-end reads that overlap (e.g. Illumina Mi-Seq). These paired-end reads must be merged into a unique sequence before continuing the data analysis. The merging process will correct errors in low quality sequenced positions and will increase the length of the sequence if it was not fully covered by any of the paired-end reads.
AmpliMERGE runs in background the FLASH algorithm with optimum overlapping parameters:
AmpliMERGE takes as input:
- SEQUENCE FILE R1: First paired-end reads file in FASTQ or FASTA format (compressed or uncompressed). Multiple files should be named '*_R1.*' and packed into a unique .ZIP or .TAR.GZ file.
- SEQUENCE FILE R2: First paired-end reads file in FASTQ or FASTA format (compressed or uncompressed). Multiple files should be named '*_R2.*' and packed into a unique .ZIP or .TAR.GZ file.
- AMPLICON DATA *: primer and tag information in a CSV format file as explained in the documentation.
Results can be downloaded on the same page or from an email message after analysis completion.
Output files will be in FASTQ compressed format, ready to be used in other AmpliSAT tools like AmpliCHECK or AmpliSAS.
For more information, read the documentation.