simonrharris SKA issues

simonrharris / SKA

Split Kmer Analysis

MIT License

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issues

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ska fasq vs ska fasta

#31 luciagrami opened 9 months ago
0
Restart package

#30 johnlees closed 2 years ago
1
SKA Type crashes when no allele is found for a locus

#29 jrober84 opened 3 years ago
0
ska distances: adding isolates to databse

#28 ckhiggs opened 4 years ago
0
kmers split by 2 adjacent SNPs for allele-specific primers

#27 dustinlong opened 4 years ago
0
SKA run out of memory on 32 GB VM

#26 foamy1881 opened 4 years ago
1
Is there a looping command to perform all SKA task

#25 foamy1881 closed 4 years ago
1
unique kmer output

#24 snafees opened 4 years ago
1
Understanding split kmers produced from fasta files

#23 antunderwood closed 5 years ago
1
multithreading

#22 lskatz opened 5 years ago
3
Deal with case of 2 or more SNPs within a kmer length

#21 simonrharris opened 5 years ago
0
ska annotate --- generate a multi-sample VCF ?

#20 tseemann opened 5 years ago
1
ska distance - include distance.phy PHYLIP too?

#19 tseemann opened 5 years ago
0
What is `XXXXXX_ddl.fa` ?

#18 tseemann opened 5 years ago
1
Order of `type` columns

#17 tseemann closed 5 years ago
2
ska type multiple samples at once?

#16 tseemann opened 5 years ago
1
fastq -> READS ; fasta -> CONTIGS ?

#15 tseemann opened 5 years ago
1
ska 1.0 now in homebrew

#14 tseemann closed 5 years ago
1
"make PREFIX=/my/dir install" still uses /usr/local

#13 tseemann closed 5 years ago
1
Tweak install in makefile

#12 johnlees closed 5 years ago
2
Tag a release

#11 johnlees closed 5 years ago
3
Improve prediction of number of missed alignments

#10 simonrharris opened 5 years ago
0
Add counts of different alleles at each site in each sample in a reference free alignment

#9 gtonkinhill closed 5 years ago
3
seg fault with "-k" option in align

#8 gtonkinhill closed 5 years ago
1
Update the wiki

#7 simonrharris closed 5 years ago
1
Publish the thing

#6 bewt85 opened 5 years ago
3
Version the kmers and/or kmerge files

#5 bewt85 closed 5 years ago
1
Less memory for `merge` and `align`

#4 bewt85 opened 5 years ago
2
One command for `fasta`, `fastq` and `merge`

#3 bewt85 opened 5 years ago
0
Consider using either kmerge or kmers as a file name, not both

#2 bewt85 closed 5 years ago
1
Remove rare kmers from merge file

#1 bewt85 closed 5 years ago
2