tseemann snp-dists issues

tseemann / snp-dists

Pairwise SNP distance matrix from a FASTA sequence alignment

GNU General Public License v3.0

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issues

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Add max diff option (-x)

#54 boasvdp opened 5 months ago
0
installation

#53 sebcotton closed 10 months ago
1
Sequences with different lengths

#52 asierFernandezP opened 1 year ago
1
running SNP-dists on large sample set

#51 DorothyTamYiLing opened 1 year ago
2
sequence identity

#50 nick-youngblut opened 1 year ago
0
How can I get snp location/info from snp-dists

#49 blooria opened 1 year ago
0
-t option for headers with molten

#48 matt-sd-watson opened 2 years ago
7
Reduce molten output to unique pairs

#47 amilesj opened 2 years ago
2
Exclude certain FASTA sequences in pairwise assessment

#46 matt-sd-watson opened 2 years ago
1
added section for container installation to readme

#45 kapsakcj opened 3 years ago
0
Add multithreading

#44 terhorst closed 3 years ago
4
Include ambiguous bases but not Ns

#43 GonzaloYebra opened 3 years ago
1
Distances between two files

#42 mbhall88 closed 2 years ago
5
Best snippy output file to use?

#41 pgcudahy opened 4 years ago
4
Plotting output

#40 mbhall88 opened 4 years ago
2
Molten output doesn't respect -b flag

#39 m-a-martin opened 4 years ago
2
Molten output relative only to one sequence?

#38 tseemann opened 4 years ago
1
Add option to report output directly in "molten" format?

#37 boasvdp closed 4 years ago
3
Add option to report SNPs/aligned mbp between pairs instead of only SNPs?

#36 boasvdp closed 2 years ago
4
snpdists input?

#35 foamy1881 closed 4 years ago
1
Lower tri

#34 schultzm closed 4 years ago
1
PHYLIP output?

#33 tseemann opened 4 years ago
1
Document tree building commands for snp-dists.tab

#32 tseemann opened 4 years ago
0
ambiguous nucleotides?

#31 trommleralex opened 5 years ago
6
Deprecated reference to `src` subdirectory

#30 ChrisHIV closed 4 years ago
1
Handling of columns with gaps

#29 kloetzl opened 5 years ago
2
correct typos

#28 kloetzl closed 5 years ago
0
adjust error message

#27 kloetzl closed 5 years ago
0
add an expected result to each test

#26 kloetzl closed 5 years ago
0
use size_t to represent string lengths

#25 kloetzl closed 5 years ago
2
finalize formatting using clang-format

#24 kloetzl closed 5 years ago
0
Add language C badge

#23 tseemann closed 5 years ago
0
Update to newer fasta (no qual) aware kseq.h

#22 tseemann closed 5 years ago
1
Duplicate sequences show a SNP difference of 1

#21 ramadatta closed 6 years ago
4
Handling upper vs lower case AGTC

#20 tseemann closed 6 years ago
0
Segmentaion fault error on snp-dists v0.4

#19 sseby closed 6 years ago
3
Does snp-dists 0.2 count the number of Ns in an alignment too? Or does it ignore them?

#18 slvrshot closed 6 years ago
1
option to control comparisons to missing bases

#17 SionBayliss closed 6 years ago
2
Add Travis CI banner

#16 andersgs closed 6 years ago
1
Fixes issue #14

#15 andersgs closed 6 years ago
1
Segmentation fault (core dumped)

#14 luciagrami closed 6 years ago
6
Change handling of "-" vs "[AGTC]"

#13 tseemann closed 6 years ago
1
citing

#12 hfmahmoud closed 6 years ago
3
Rebase kloetzl PR

#11 andrewjpage closed 6 years ago
0
simplify allocation and fix memory leak

#10 kloetzl closed 6 years ago
2
Stackoverflow

#9 kloetzl closed 6 years ago
2
Fix C99 compile

#8 andrewjpage closed 6 years ago
0
Remove automatically generated files

#7 kloetzl closed 6 years ago
1
Add Travis and filter on ACGT only

#6 andrewjpage closed 6 years ago
0
Document support for .gz files

#5 tseemann closed 6 years ago
0