martinjvickers KAST issues

martinjvickers / KAST

Perform Alignment-free k-tuple frequency comparisons from sequences. This can be in the form of two input files (e.g. a reference and a query) or a single file for pairwise comparisons to be made.

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Add check for zero sized record in qry/ref mode

#46 martinjvickers opened 5 years ago
0
Updated

#45 martinjvickers closed 5 years ago
0
Fixed issue with static pthread with seqan 2.4.0

#44 martinjvickers closed 5 years ago
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Added app tests

#43 martinjvickers closed 5 years ago
0
Updated tests for AminoAcid d2s and d2star

#42 martinjvickers closed 5 years ago
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Refactored MarkovCounts

#41 martinjvickers closed 5 years ago
0
Updated

#40 martinjvickers closed 6 years ago
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There is an issue with counting when doing this within markov

#39 martinjvickers closed 6 years ago
2
Run travis install on several ubuntu and centos versions

#38 martinjvickers opened 6 years ago
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Move to SeqAn 2.4

#37 martinjvickers closed 6 years ago
2
Implement reducedAminoAcid Alphabet

#36 martinjvickers closed 6 years ago
1
dai and hao returning different result from d2tools

#35 martinjvickers closed 6 years ago
2
Find ngd and bc result example for test as both returning same result

#34 martinjvickers closed 6 years ago
1
Add KAST to BioConda

#33 martinjvickers opened 6 years ago
0
Create Galaxy wrapper in a repository

#32 martinjvickers opened 6 years ago
0
Create a supported Docker image

#31 martinjvickers closed 2 years ago
1
Create a supported singularity image

#30 martinjvickers opened 6 years ago
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App tests for DNA5

#29 martinjvickers opened 6 years ago
0
App tests AminoAcid

#28 martinjvickers opened 6 years ago
0
Fail well if going to use too much RAM rather than segfault.

#27 martinjvickers closed 5 years ago
1
Add functioning unit test for masked count

#26 martinjvickers opened 6 years ago
0
Improve PW speed

#25 martinjvickers closed 6 years ago
1
Deal with UI

#24 martinjvickers closed 6 years ago
1
Now we're working on amino acids, deal with N's correctly

#23 martinjvickers closed 6 years ago
2
When doing protein distance, shouldn't use reverse compliment

#22 martinjvickers closed 6 years ago
1
Write test files for additional file formats

#21 martinjvickers opened 6 years ago
0
investigate potential DAI issue

#20 martinjvickers closed 6 years ago
2
Investigate issue with d2s-opt

#19 martinjvickers closed 6 years ago
1
Issue with -ve score returned with d2 distance

#18 martinjvickers closed 6 years ago
1
Issue with markov order

#17 martinjvickers closed 6 years ago
2
Handle fasta file containing zero length sequence

#16 martinjvickers closed 6 years ago
1
Added amino acid (protein) comparison

#15 martinjvickers closed 7 years ago
0
Get travis working

#14 martinjvickers closed 7 years ago
0
Clean up old files that are no longer needed

#13 martinjvickers closed 7 years ago
1
Limit the number of kmers used in a variety of cases

#12 martinjvickers closed 7 years ago
1
Comment functions in utils, distance and seq

#11 martinjvickers opened 7 years ago
0
Rename from alfsc_rewrite to alfsc

#10 martinjvickers closed 7 years ago
1
Combine old historical alfsc repository to this one

#9 martinjvickers closed 7 years ago
0
Write wiki, readme and tutorial

#8 martinjvickers opened 7 years ago
2
Ensure all distances are completely checked

#7 martinjvickers closed 2 years ago
4
Make 'use ram' default

#6 martinjvickers closed 7 years ago
1
Detect output file and overwrite

#5 martinjvickers closed 7 years ago
1
Add header files for distances and utils

#4 martinjvickers closed 7 years ago
1
Add d2star, hao, manhatten, chebyshev and dAI distances

#3 martinjvickers closed 7 years ago
1
Ensure all IO is caught

#2 martinjvickers closed 7 years ago
1
Get pairwise comparison threaded

#1 martinjvickers closed 7 years ago
0