sanger-pathogens snp-sites issues

sanger-pathogens / snp-sites

Finds SNP sites from a multi-FASTA alignment file

http://sanger-pathogens.github.io/snp-sites/

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issues

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snp-sites -C with gubbins outputs

#114 djbradshaw2 opened 2 months ago
1
why snp-sites generated variations numbers different snippy mapping results

#113 Zjianglin opened 5 months ago
0
Warning: No SNPs were detected so there is nothing to output

#112 sreerampeela opened 1 year ago
1
How to know the interested SNP position in genome?

#111 snackens opened 1 year ago
0
segmentation fault

#110 BettyAC opened 1 year ago
2
How to specify the reference sequence

#109 ACColin opened 2 years ago
0
./configure: line 3036: syntax error near unexpected token `CHECK,check' ./configure: line 3036: `PKG_CHECK_MODULES(CHECK,check >= 0.8.2,have_check="yes",'

#108 nick-pestell opened 2 years ago
0
How to understand `monomorphic sites`?

#107 xuechunxu opened 2 years ago
1
Recommendation for multiple genome alignment

#106 snayfach opened 2 years ago
1
What does *STAR* in ALT stand for

#105 jielab opened 3 years ago
3
snp-sites for all ~2 million SARS-COV-2 genomes in GISAID

#104 jielab opened 3 years ago
1
Improvement: let user specify pure and ambiguous bases

#103 arturotorreso opened 3 years ago
0
snp-sites docker install issue

#102 AgatheJouet opened 3 years ago
0
error: alignment contains sequences of unequal length

#101 rderelle opened 3 years ago
8
Travis-ci:added support for ppc64le

#100 sanjaymsh closed 3 years ago
1
Is there a way to extract SNP mutations form the VCF file ?

#99 ASQWZXED opened 3 years ago
0
How to manage heterozygosity in SNP conversion?

#98 Pryfed opened 4 years ago
0
snp-sites -c doesn't produce recognisable alignment for IQtree

#97 martinastoycheva opened 4 years ago
1
Warning: No SNPs were detected so there is nothing to output

#96 pgcudahy opened 4 years ago
1
32 bit signed integer error

#95 ethering opened 4 years ago
1
snp-sites do not see do deletion events

#94 bioinfornatics opened 4 years ago
1
snps-sites tool help

#93 cmaquez opened 4 years ago
0
Remove snpsites-help email

#92 garethpeat closed 4 years ago
0
how to visualize VCF file in artemis?

#91 tushar-ahmed opened 4 years ago
0
Possibility to specify known reference

#90 jcgrenier opened 4 years ago
2
apt-get installation of snp-sites

#89 nbawe closed 4 years ago
1
specify order of output of -C option in help message

#88 amilesj opened 4 years ago
2
Reformat all code (using CLion)

#87 pvanheus closed 5 years ago
0
add email for Peter van Heusden

#86 pvanheus closed 5 years ago
0
Rewrite how count_constant_sites is implemented, add test

#85 pvanheus closed 5 years ago
0
Add output of only count of constant sites

#84 pvanheus closed 5 years ago
1
Problem with installation via Bioconda

#83 Martinique-F closed 5 years ago
2
functionality of -b option alone?

#82 eam12 opened 5 years ago
1
line 3030: syntax error near unexpected token `CHECK,check' on REHL 7.5

#81 Aworwui closed 5 years ago
1
Is there a sequence length limit? "Warning: No SNPs were detected so there is nothing to output."

#80 FatihSarigol closed 5 years ago
1
Is the reference genome used when using the snp-sites software?

#79 youlijun closed 5 years ago
1
Segmentation error

#78 besnarda closed 5 years ago
1
Error with Mauve alignment input

#77 jglenn72 closed 5 years ago
1
Pipe into snp-sites

#76 ssjunnebo opened 5 years ago
0
627258 codecov

#75 ssjunnebo closed 5 years ago
0
added changelog

#74 ssjunnebo closed 5 years ago
0
Include tests in README

#73 ssjunnebo closed 5 years ago
0
SegFault for unknown reason

#72 flashton2003 closed 6 years ago
1
Recommended workflow?

#71 stevendavis opened 6 years ago
0
Include docker and conda badges

#70 ssjunnebo closed 6 years ago
0
No ./configure in release tarball despite docs

#69 tseemann opened 6 years ago
0
Info in VCF output format

#68 ricardoruiz2897 closed 6 years ago
1
fixed Dockerfile

#67 trstickland closed 6 years ago
0
Keeping indels, projecting reference coordinates?

#66 LovellHAGSC opened 6 years ago
1
update readme

#65 ssjunnebo closed 6 years ago
0