Metadata for tilling study:

Intro:

The prior re-sequencing of the exome of 1,203 Cadenza mutants using Illumina next-generation sequencing, was realigned to IWGSC Chinese Spring Refseq v1.0 reference. Unmapped reads were mapped to the Cadenza Earlham v1.0 reference. These BAM files were used for SNP calling and the resulting SNPs are presented on the http://www.wheat-tilling.com/ and Ensembl Plants websites.

Details:

Raw data: European Read Archive (ENA study PRJEB11524).

Cadenza lib reference: IWGSC refseq v1.0 Chinese spring parts file.

Unmapped Cadenza lib reads reference: Cadenza v1.0.

Reads were trimmed using sickle/sythe (v1.33) then mapped with BWA and marked with picard tools within the Dragen system (v01.011.222.02.04.04.36875). Unmapped reads from mapping to IWGSC refseq v1.0 reference were extracted using samtools (v0.1.18) and converted to fastq using bedtools bamToFastq (v2.17.0).

Cadenza lib IWGSC refseq v1.0 reference average mapping rate: 93.3 - 93.6%

Cadenza lib IWGSC refseq v1.0 BAM files: 1203 files (2.6 Gb – 22.368 Gb = total ~10 Tb)

Cadenza lib IWGSC refseq v1.0 bai files: 1203 files

Cadenza lib Cadenza v1.0 BAM files: 1203 files (36 Kb – 696 Kb = total ~228 Gb)

Cadenza lib Cadenza v1.0 bai files: 1203 files