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1. DifCover DifCover Public

   The DifCover pipeline aims to identify regions in a reference genome for which the read coverage of a sample1 to the reference is significantly different from the read coverage of a sample2. “Signi…

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2. TRate TRate Public template

   The TRate program computes "rate" of each transcript according to given coverage file.

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3. SparseGenotyping SparseGenotyping Public

   SparseGenotyping - is a program that allows to define a consensus genotype for scaffolds based on low-coverage SNP calls by accumulating number of reads that support one or another genotype across …

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4. TRate_rl TRate_rl Public template

   Similar to TRate but normalization is done by 2X of read length (should be provided by user) vs length of the undercurve interval as was done in TRate

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5. TRate_trl TRate_trl Public

   TRate_trl computed a score for each given transcript as a sum of depth of all bases under the coverage curve divided by D = (2Xread_length)*Transcript_length/1000

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