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lweasel
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piquant
A pipeline to assess the quantification of transcripts.
http://piquant.readthedocs.org/en/latest/
MIT License
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Improve naming of parameters.py etc.
#15
lweasel
closed
9 years ago
1
Add transcript GTF file and genome fasta directory into params file
#14
lweasel
closed
10 years ago
0
Tidy calculate_unique_transcript_sequence into functions to allow for testing
#13
lweasel
closed
10 years ago
0
Full path to bias file needs to be written in run_quantification.sh
#12
lweasel
closed
10 years ago
0
Move code from top-level scripts into modules so that it can be tested.
#11
lweasel
closed
10 years ago
1
Consistent structure for scripts
#10
lweasel
closed
10 years ago
0
Add functionality to clean up big files after runs.
#9
lweasel
closed
10 years ago
1
Merge assembling and analysis of multiple runs into piquant.py.
#8
lweasel
closed
10 years ago
0
Merge create_reads.py and quantify.py.
#7
lweasel
closed
10 years ago
0
Add "check completion" command to create_reads
#6
lweasel
closed
10 years ago
0
Need a way to calculate number of molecules
#5
lweasel
closed
10 years ago
1
Add option to run_quantifiers to check runs have completed
#4
lweasel
closed
10 years ago
0
Accuracy calculations should be done with TPM, not FPKM
#3
lweasel
closed
10 years ago
3
Add Sailfish as a quantifier
#2
lweasel
closed
10 years ago
1
Separate execution of one-time preparatory commands
#1
lweasel
closed
10 years ago
0
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