Downloads tab
Description
The filtered dataset: Allows you to download information on V D and J gene usage, the junctions and the amino acid sequence of the sequences that passed the chosen filter settings. Note: this file contains only 1 sequences of a replicate sequence.
Gene frequencies
The dataset used to generate the distribution of V gene families graph: Downloads a table with information used to generate the distribution of V gene families graph.
The dataset used to generate the distribution of D gene families graph: Downloads a table with information used to generate the distribution of D gene families graph.
The dataset used to generate the relative frequency of V gene usage graph: Downloads the data used to generate the relative frequency of V gene usage graph. In addition information on the chromosomal order of the V genes can be found.
The dataset used to generate the relative frequency of D gene usage graph: Downloads the data used to generate the relative frequency of D gene usage graph. In addition information on the chromosomal order of the D genes can be found.
The dataset used to generate the relative frequency of J gene usage graph: Downloads the data used to generate the relative frequency of J gene usage graph. In addition information on the chromosomal order of the J genes can be found.
The dataset used to generate the relative frequency of the D reading frame graph: Downloads the data used to generate the relative frequency of the D reading frame.
CDR3 characteristics
The dataset used to generate the CDR3 length frequency graph: Downloads a table with information used for the length distribution of CDR3 plot.
The dataset used to generate the Amino Acid Composition in the CDR3 graph: Downloads the frequency of the different amino acids in the CDR3 of all filtered sequences. This data set is used for the generation of the Amino Acid Composition in the CDR3 graph. In addition the order of amino acids based on hydrophobicity in included.
Heatmaps
The data used to generate the VD heatmap for “donor name”: Downloads the data set used for the generation of the VD heatmap. For each uploaded donor a separate download is generated.
The data used to generate the VJ heatmap for “donor name”: Downloads the data set used for the generation of the VJ heatmap. For each uploaded donor a separate download is generated.
The data used to generate the DJ heatmap for “sample name”: Downloads the data set used for the generation of the DJ heatmap. For each uploaded donor a separate download is generated.
Circos
The data used to generate the VD circus plots for “donor name”: Downloads the data set used for the generation of the VD heatmap. For each uploaded donor a separate download is generated.
The data used to generate the VJ circus plots for “donor name”: Downloads the data set used for the generation of the VJ heatmap. For each uploaded donor a separate download is generated.
The data used to generate the DJ circus plots for “sample name”: Downloads the data set used for the generation of the DJ heatmap. For each uploaded donor a separate download is generated.
Clonality
The dataset used to calculate clonality score: Allows you to download information on V D and J gene usage, the junctions and the amino acid sequence of the sequences that passed the chosen filter settings. Note: this file contains all the replicate sequences form the different input files.
Sequences that are present in more than one replicate: Allows you to download a table containing all the sequences that were present in more than one replicate. It provides the concidence type, clonaltype, sequence name, replicate number, and the nucleotide sequence