Snitkin-Lab-Umich scripts issues

Snitkin-Lab-Umich / scripts

Frequently used Scripts

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WARNING_TRANSCRIPT_NO_START_CODON"

#29 katiesaund opened 5 years ago
2
Non-coding intragenic?

#28 katiesaund opened 5 years ago
0
row names of mat element have a / at the beginning and end in a test case

#27 sthiede closed 5 years ago
1
Install packages if not already installed

#26 alipirani88 opened 5 years ago
0
make possible to run render_variant_matrix_qc.R with multiple matrices in parallel

#25 zenalapp opened 5 years ago
0
Organizing Script Directory and moving scripts to relevant analysis folders

#24 alipirani88 opened 5 years ago
1
Change names to pre-masking and post-masking?

#23 katiesaund closed 5 years ago
1
Add outlier test for find samples with elevated FQ

#22 katiesaund opened 5 years ago
1
Separate locus tag and strand information in snp and indel parser

#21 zenalapp opened 5 years ago
1
no full path

#20 zenalapp closed 5 years ago
1
add help message

#19 zenalapp opened 5 years ago
0
optional .RData input

#18 zenalapp closed 5 years ago
1
remove del

#17 katiesaund closed 5 years ago
1
BLOSUM matrix choice

#16 katiesaund closed 5 years ago
2
FQ/MQ filter information not available

#15 katiesaund opened 5 years ago
0
update colors

#14 katiesaund opened 5 years ago
1
variant names

#13 katiesaund closed 5 years ago
1
to address later: do we want this function to output different versions of the matrix based on the functional impact?

#12 sthiede opened 5 years ago
1
Add a new flag in indel and snp matrix to parse strand information

#11 sthiede closed 5 years ago
1
Create a new function to split lines with duplicate alleles

#10 sthiede opened 5 years ago
1
Make sure the rownames and row contents match in the snpmat

#9 sthiede opened 5 years ago
1
For variants on the negative strand, reverse complement the contents of the row to match the rowname

#8 sthiede opened 5 years ago
0
Confused on what to do with variants with locus tag CHR_END, currently removing

#7 sthiede opened 5 years ago
2
Add a warning message if there are row names that only include "None"

#6 sthiede closed 5 years ago
1
dummy issue

#5 katiesaund closed 5 years ago
0
Dummy issue

#4 alipirani88 closed 5 years ago
1
Bug/split any annotations

#3 dUmich closed 6 years ago
0
changed from my computer

#2 sthiede closed 6 years ago
0
Update makeTreeVars.R

#1 sthiede closed 6 years ago
0