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Update Project Design
authored
Oct 19, 2022
by
Bastian Wagner
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Project-Design.md
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@@ -6,20 +6,20 @@ Simulating cDNA synthesis This is done by reverse transcribing starting from the
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@@ -6,20 +6,20 @@ Simulating cDNA synthesis This is done by reverse transcribing starting from the
**Design**
**Design**
1.
Extract transcri
t
pt_sequences, transcri
t
pt_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.
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transcri
t
pt_sequences = GATGCGG… , AAGCGCGG…, CTCTTGCGG…
\[
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\]
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transcript_sequences = GATGCGG… , AAGCGCGG…, CTCTTGCGG…
\[
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\]
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transcri
t
pt_copy_number = 100, 40, 30
\[
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\]
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transcript_copy_number = 100, 40, 30
\[
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\]
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priming_sites = 220, 260, 390
\[
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\]
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priming_sites = 220, 260, 390
\[
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\]
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priming_probabilities = 0.33, 0.27, 0.40
\[
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\]
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priming_probabilities = 0.33, 0.27, 0.40
\[
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\]
2.
Generate a list of unique_transcripts based on transcri
t
pt_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.
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TTTACGGT…
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TTTACGGT…
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CCATACGG…
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CCATACGG…
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CGGGGCG…
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CGGGGCG…
3.
Generate list of copy numbers for each unique transcript based on priming_probabilities + transcri
t
pt_copy_number
3.
Generate list of copy numbers for each unique transcript based on priming_probabilities + transcript_copy_number
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TTTACGGT… 33
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TTTACGGT… 33
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CCATACGG… 27
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CCATACGG… 27
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