CIMMYT Research Data & Software Repository Network

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1,361 to 1,370 of 1,520 Results

DArTSeq_SNPs_45610samples_102474markers.FJ.txt.zip Jul 24, 2016 - Seeds of Discovery - MasAgro Biodiversidad Wheat DArTseq-Derived SNP Data: Beta Recall Results From 2011-2014 Unknown - 596.3 MB - MD5: 91e690cb820ff467c1fe73832c5882f4 Genotypic data DArtSeq SNP call data in a tab-delimited text file. This can be used for uploading to Flapjack in conjunction with the map file. Please note that this matrix is inverted from the normal Flapjack format so the appropriate parameter must be changed in the Flapjack import tool.
DArTSeq_SNPs_report_data_dictionary.txt Jul 24, 2016 - Seeds of Discovery - MasAgro Biodiversidad Wheat DArTseq-Derived SNP Data: Beta Recall Results From 2011-2014 Plain Text - 2.2 KB - MD5: 945162b58c7b76b74b42e69cd70c8896 Data dictionary A description of the columns of information and header row information present in the DArTSeq SNPs csv genotypic results file.
DArTSeq_wheat_genotyping_protocol.pdf Jul 24, 2016 - Seeds of Discovery - MasAgro Biodiversidad Wheat DArTseq-Derived SNP Data: Beta Recall Results From 2011-2014 Adobe PDF - 188.5 KB - MD5: 39588041c9433250f9d59f96ad81feaa Protocol
DNA extraction protocol_for_genotyping_CIMMYT.pdf Jul 24, 2016 - Seeds of Discovery - MasAgro Biodiversidad Wheat DArTseq-Derived SNP Data: Beta Recall Results From 2011-2014 Adobe PDF - 85.1 KB - MD5: 78cfd5d827195a021845bd676223fecc Protocol Protocol used for DNA extraction prior to genotyping
Flapjack_memory_allocation_increase.pdf Jul 24, 2016 - Seeds of Discovery - MasAgro Biodiversidad Wheat DArTseq-Derived SNP Data: Beta Recall Results From 2011-2014 Adobe PDF - 226.1 KB - MD5: fc3714ed31498c14e6691cd3ea06df07 Protocol The files released with this study are so large that they cannot be loaded into Flapjack using the default memory allocation but this protocol describes how to increase the memory available to Flapjack.
md5sum_hash.txt Jul 24, 2016 - Seeds of Discovery - MasAgro Biodiversidad Wheat DArTseq-Derived SNP Data: Beta Recall Results From 2011-2014 Plain Text - 514 B - MD5: 32e3390296025fa11580a62efe3be6c7 Checksum file This file can be used to verify the integrity of the files once they have been downloaded and unzipped.
SampleIDvsGID_45610samples.txt Jul 24, 2016 - Seeds of Discovery - MasAgro Biodiversidad Wheat DArTseq-Derived SNP Data: Beta Recall Results From 2011-2014 Plain Text - 931.1 KB - MD5: 565a06647fcf7ab6c5616df9a96666bd Mapping file This file can be used to map between the DNA Sample ID used to identify samples in the DArTSeq genotypic results files and the GID (Germplasm ID) that is used to identify CIMMYT germplasm.
Complete_CML1-538_unimputed_genotypic_results.hmp.txt Jul 13, 2016 - CIMMYT Maize Line genotypic profiles generated through genotyping-by-sequencing Plain Text - 1.0 GB - MD5: 3752de63fffdff9f67e105274a56a1b2 Genotypic data Genotypic results for unimputed SNPs are presented in hapmap format for 538 CML lines and 6 temperate US inbred lines.
Filtered_CML1-538_unimputed_genotypic_results.hmp.txt Jul 13, 2016 - CIMMYT Maize Line genotypic profiles generated through genotyping-by-sequencing Plain Text - 392.4 MB - MD5: 6f2662b61f6762ed2d35db7c781187a7 Genotypic data A filtered subset of 362008 of the unimputed SNPs are presented in hapmap format for 538 CML lines and 6 temperate US inbred lines.
CML-DArTseq_data.hmp.zip Jun 15, 2016 - CIMMYT Maize Line (CML) SNPs Generated Using DArTseq Genotyping Unknown - 3.1 MB - MD5: 566da82b9bfa82b622d84340e93879d2 Genotypic data Single nucleotide polymorphisms (SNPs) for 555 CML lines generated through DArTseq-based genotyping. Please note that the position given in the file for each marker describes the position where the first nucleotide of the clone sequence aligns to the reference genome.

DArTSeq_SNPs_45610samples_102474markers.FJ.txt.zip

Jul 24, 2016 - Seeds of Discovery - MasAgro Biodiversidad Wheat DArTseq-Derived SNP Data: Beta Recall Results From 2011-2014

Unknown - 596.3 MB -

Genotypic data

DArtSeq SNP call data in a tab-delimited text file. This can be used for uploading to Flapjack in conjunction with the map file. Please note that this matrix is inverted from the normal Flapjack format so the appropriate parameter must be changed in the Flapjack import tool.

DArTSeq_SNPs_report_data_dictionary.txt

Jul 24, 2016 - Seeds of Discovery - MasAgro Biodiversidad Wheat DArTseq-Derived SNP Data: Beta Recall Results From 2011-2014

Plain Text - 2.2 KB -

Data dictionary

A description of the columns of information and header row information present in the DArTSeq SNPs csv genotypic results file.

DArTSeq_wheat_genotyping_protocol.pdf

Jul 24, 2016 - Seeds of Discovery - MasAgro Biodiversidad Wheat DArTseq-Derived SNP Data: Beta Recall Results From 2011-2014

Adobe PDF - 188.5 KB -

Protocol

DNA extraction protocol_for_genotyping_CIMMYT.pdf

Jul 24, 2016 - Seeds of Discovery - MasAgro Biodiversidad Wheat DArTseq-Derived SNP Data: Beta Recall Results From 2011-2014

Adobe PDF - 85.1 KB -

Protocol

Protocol used for DNA extraction prior to genotyping

Flapjack_memory_allocation_increase.pdf

Jul 24, 2016 - Seeds of Discovery - MasAgro Biodiversidad Wheat DArTseq-Derived SNP Data: Beta Recall Results From 2011-2014

Adobe PDF - 226.1 KB -

Protocol

The files released with this study are so large that they cannot be loaded into Flapjack using the default memory allocation but this protocol describes how to increase the memory available to Flapjack.

md5sum_hash.txt

Jul 24, 2016 - Seeds of Discovery - MasAgro Biodiversidad Wheat DArTseq-Derived SNP Data: Beta Recall Results From 2011-2014

Plain Text - 514 B -

Checksum file

This file can be used to verify the integrity of the files once they have been downloaded and unzipped.

SampleIDvsGID_45610samples.txt

Jul 24, 2016 - Seeds of Discovery - MasAgro Biodiversidad Wheat DArTseq-Derived SNP Data: Beta Recall Results From 2011-2014

Plain Text - 931.1 KB -

Mapping file

This file can be used to map between the DNA Sample ID used to identify samples in the DArTSeq genotypic results files and the GID (Germplasm ID) that is used to identify CIMMYT germplasm.

Complete_CML1-538_unimputed_genotypic_results.hmp.txt

Jul 13, 2016 - CIMMYT Maize Line genotypic profiles generated through genotyping-by-sequencing

Plain Text - 1.0 GB -

Genotypic data

Genotypic results for unimputed SNPs are presented in hapmap format for 538 CML lines and 6 temperate US inbred lines.

Filtered_CML1-538_unimputed_genotypic_results.hmp.txt

Jul 13, 2016 - CIMMYT Maize Line genotypic profiles generated through genotyping-by-sequencing

Plain Text - 392.4 MB -

Genotypic data

A filtered subset of 362008 of the unimputed SNPs are presented in hapmap format for 538 CML lines and 6 temperate US inbred lines.

CML-DArTseq_data.hmp.zip

Jun 15, 2016 - CIMMYT Maize Line (CML) SNPs Generated Using DArTseq Genotyping

Unknown - 3.1 MB -

Genotypic data

Single nucleotide polymorphisms (SNPs) for 555 CML lines generated through DArTseq-based genotyping. Please note that the position given in the file for each marker describes the position where the first nucleotide of the clone sequence aligns to the reference genome.

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