- Sep 15, 2021
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Matej Lexa authored
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Matej Lexa authored
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Matej Lexa authored
Testing row and column reordering in TEHeatmap_norm1.R; added exons and PlantSat annotations to analysis
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- Sep 14, 2021
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Monika Čechová authored
Instead of generating heatmaps, this script now produces a .tab file that can be passed to normalizations and heatmap generation. The tab file is saved in "tab_RE.Rdata" format. However, because it's part of the RepeatExplorer branch of the pipeline, chromosome names and positions are undefined.
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Matej Lexa authored
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Matej Lexa authored
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Matej Lexa authored
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- Sep 13, 2021
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Son Hoang Nguyen authored
add process CAT_ANNOTATIONS, prepare shuffled channel.
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Matej Lexa authored
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Matej Lexa authored
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Matej Lexa authored
Fixed errors when matrix for heatmap was too small (less than 2 rows or columns), now gracefully prints an empty image
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Matej Lexa authored
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Matej Lexa authored
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Matej Lexa authored
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Son Hoang Nguyen authored
add repeatexplorer.nf to main pipeline, rename output for png files.
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- Sep 12, 2021
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Monika Čechová authored
fixed the bug for the calculation of expected counts of family pairs; moved normalization code into a separate function
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- Sep 09, 2021
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Matej Lexa authored
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Matej Lexa authored
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Matej Lexa authored
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Matej Lexa authored
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- Sep 08, 2021
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Matej Lexa authored
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Matej Lexa authored
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Matej Lexa authored
Created a data folder for various distributed data files, starting with centromere positions to use with karyotypeR BAM plots
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Matej Lexa authored
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Son Hoang Nguyen authored
Make variable names more descriptive
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Son Hoang Nguyen authored
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Son Hoang Nguyen authored
Modify SHUFFLE_FRAGMENTS to accept genome lenght. Move process for generating table to its own module. Add circos to main_TE_2.nf.
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Matej Lexa authored
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Matej Lexa authored
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Matej Lexa authored
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- Sep 07, 2021
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Matej Lexa authored
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Monika Čechová authored
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Monika Čechová authored
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Matej Lexa authored
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Matej Lexa authored
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- Sep 06, 2021
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Monika Čechová authored
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Monika Čechová authored
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Monika Čechová authored
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