Ecosyste.ms: Issues

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GitHub / Phelimb/atlas issues and pull requests

#33 - Atlas installation

Issue - State: open - Opened by idolawoye almost 6 years ago

#32 - Make probes dna mut rev strand

Pull Request - State: open - Opened by Phelimb almost 7 years ago

#31 - make-probes

Pull Request - State: open - Opened by Phelimb almost 7 years ago

#30 - Cleanup logging; removed mccortex quiet flag

Pull Request - State: closed - Opened by ffranr about 7 years ago

#29 - fix: windows OS finds mccortex binary in scripts current directory

Pull Request - State: closed - Opened by ffranr about 7 years ago

#28 - removed trailing forward slash from tmp directory path for windows support

Pull Request - State: closed - Opened by ffranr about 7 years ago - 1 comment

#27 - Update presence.py

Pull Request - State: closed - Opened by Phelimb over 7 years ago

#26 - Update presence.py

Pull Request - State: closed - Opened by Phelimb over 7 years ago - 1 comment

#25 - Fix formatting of shell code + tidy up

Pull Request - State: closed - Opened by tseemann over 7 years ago

#24 - Dev

Pull Request - State: closed - Opened by Phelimb over 7 years ago

#23 - Issue with database or genotype calibration

Issue - State: open - Opened by iqbal-lab about 8 years ago - 9 comments

#22 - Walk finds allele at 600x that genotype misses

Issue - State: open - Opened by ronald-jaepel about 8 years ago - 1 comment

#21 - Change threshold for outputting paths in `walk`

Issue - State: open - Opened by Phelimb over 8 years ago - 3 comments

#20 - Underestimation of expected depth

Issue - State: open - Opened by ronald-jaepel over 8 years ago

#19 - .

Issue - State: closed - Opened by Phelimb over 8 years ago

#18 - Add MCR-1/2 to panel

Issue - State: open - Opened by Phelimb over 8 years ago - 1 comment

#17 - atlas/docs/usage/genotyping.md

Issue - State: closed - Opened by hcdenbakker over 8 years ago - 3 comments

#16 - Mccortex Path not accepted

Issue - State: closed - Opened by ronald-jaepel over 8 years ago - 5 comments

#15 - Install issue

Issue - State: closed - Opened by Phelimb over 8 years ago - 2 comments

#14 - Walk finds completely novel allele when presented with mutated allele

Issue - State: closed - Opened by ronald-jaepel over 8 years ago - 3 comments

#13 - Walk finds database allele when presented with mutated allele

Issue - State: closed - Opened by ronald-jaepel over 8 years ago - 3 comments
Labels: bug

#11 - Genotyping Errors

Issue - State: closed - Opened by ronald-jaepel over 8 years ago - 32 comments

#10 - Issues from Rachel

Issue - State: open - Opened by Phelimb over 8 years ago - 2 comments

#9 - Add option for ONT error rate for genotyping

Issue - State: open - Opened by Phelimb over 8 years ago

#7 - Defining variants independent of reference

Issue - State: open - Opened by Phelimb over 8 years ago - 1 comment

#6 - can we remove the copyright attribution to isaac in atlas ?

Issue - State: closed - Opened by iqbal-lab over 8 years ago - 1 comment

#5 - Removing paralog kmers

Issue - State: open - Opened by iqbal-lab over 8 years ago - 1 comment

#4 - How to get good measure of sensitivity and specificity

Issue - State: open - Opened by Phelimb almost 9 years ago

#3 - references should be attached to population variants

Issue - State: closed - Opened by Phelimb almost 9 years ago

#2 - Clade defining variants should be variants found in ALL

Issue - State: open - Opened by Phelimb about 9 years ago