Update Project Design authored by Bastian Wagner's avatar Bastian Wagner
...@@ -6,20 +6,20 @@ Simulating cDNA synthesis This is done by reverse transcribing starting from the ...@@ -6,20 +6,20 @@ Simulating cDNA synthesis This is done by reverse transcribing starting from the
**Design** **Design**
1. Extract transcritpt_sequences, transcritpt_copy_number, priming_sites and priming_probabilities from input files. 1. Extract transcript_sequences, transcript_copy_number, priming_sites and priming_probabilities from input files.
- transcritpt_sequences = GATGCGG… , AAGCGCGG…, CTCTTGCGG… \[...\] - transcript_sequences = GATGCGG… , AAGCGCGG…, CTCTTGCGG… \[...\]
- transcritpt_copy_number = 100, 40, 30 \[...\] - transcript_copy_number = 100, 40, 30 \[...\]
- priming_sites = 220, 260, 390 \[...\] - priming_sites = 220, 260, 390 \[...\]
- priming_probabilities = 0.33, 0.27, 0.40 \[...\] - priming_probabilities = 0.33, 0.27, 0.40 \[...\]
2. Generate a list of unique_transcripts based on transcritpt_sequences + priming_sites and add the list to the fasta output file. 2. Generate a list of unique_transcripts based on transcript_sequences + priming_sites and add the list to the FASTA output file.
- TTTACGGT… - TTTACGGT…
- CCATACGG… - CCATACGG…
- CGGGGCG… - CGGGGCG…
3. Generate list of copy numbers for each unique transcript based on priming_probabilities + transcritpt_copy_number 3. Generate list of copy numbers for each unique transcript based on priming_probabilities + transcript_copy_number
- TTTACGGT… 33 - TTTACGGT… 33
- CCATACGG… 27 - CCATACGG… 27
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