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fedarko
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strainFlye
Pipeline for analyzing (rare) mutations in metagenome-assembled genomes
BSD 3-Clause "New" or "Revised" License
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Adjusting align to work around indexing limits
#21
fedarko
opened
2 years ago
0
Throw input-specific errors as early as possible
#20
fedarko
closed
2 years ago
0
Support specifying contigs as subset of references in BAM file
#19
fedarko
closed
2 years ago
0
Output diversity index numerator and denominator as separate TSV entries, rather than as floats?
#18
fedarko
opened
2 years ago
0
Improve "align"'s calls to minimap2 and samtools
#17
fedarko
closed
2 years ago
0
Create output parent directory (/ies) if they don't exist
#16
fedarko
opened
2 years ago
0
Speed up p-mut / r-mut calling
#15
fedarko
closed
2 years ago
0
Completely avoid division of values of p by 100 (at least in calling)
#14
fedarko
closed
2 years ago
1
Remove intermediate BAM files during/after alignment step
#13
fedarko
closed
2 years ago
0
Throw errors if we see degenerate nucleotides
#12
fedarko
closed
2 years ago
1
Speed up filtering scripts (OSA, PM) if we detect "empty" sequences
#11
fedarko
closed
2 years ago
0
Fully worked out tutorial
#10
fedarko
closed
1 year ago
2
Bring back automatically-update-README script
#9
fedarko
opened
2 years ago
0
Fix build
#8
fedarko
closed
2 years ago
1
Add GFA --> FASTA command
#7
fedarko
closed
2 years ago
0
Splitting up commands into groups
#6
fedarko
closed
2 years ago
0
Sort out exact dependencies
#5
fedarko
closed
2 years ago
1
Setting up on package managers
#4
fedarko
closed
1 year ago
0
Document citations of "wrapped" software
#3
fedarko
closed
1 year ago
0
Test infrastructure
#2
fedarko
closed
2 years ago
1
Set up commands using Click
#1
fedarko
opened
2 years ago
1
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