isaacovercast/easysfs issues and pull requests

#69 - Confirmation required in case of sample differences between vcf and popfile

Issue - State: closed - Opened by r-poloni 4 months ago - 4 comments

#69 - Confirmation required in case of sample differences between vcf and popfile

Issue - State: closed - Opened by r-poloni 4 months ago - 4 comments

#68 - Very low projection value

Issue - State: closed - Opened by ModiShrushti 6 months ago - 9 comments

#68 - Very low projection value

Issue - State: closed - Opened by ModiShrushti 6 months ago - 9 comments

#67 - Trouble obtaining SFS files

Issue - State: closed - Opened by LeoVincenzi 7 months ago - 7 comments

#67 - Trouble obtaining SFS files

Issue - State: closed - Opened by LeoVincenzi 7 months ago - 7 comments

#66 - EasySFS runtime? Running forever?

Issue - State: closed - Opened by lokeyCEU 8 months ago - 8 comments

#66 - EasySFS runtime? Running forever?

Issue - State: closed - Opened by lokeyCEU 8 months ago - 8 comments

#65 - killed process in easySFS

Issue - State: closed - Opened by SunJJ230120 about 1 year ago - 2 comments

#65 - killed process in easySFS

Issue - State: closed - Opened by SunJJ230120 about 1 year ago - 2 comments

#64 - Inquiry over projections

Issue - State: closed - Opened by FernandoLeG over 1 year ago - 1 comment

#64 - Inquiry over projections

Issue - State: closed - Opened by FernandoLeG over 1 year ago - 1 comment

#63 - killed process

Issue - State: closed - Opened by Priambodobagus over 1 year ago - 2 comments

#63 - killed process

Issue - State: closed - Opened by Priambodobagus over 1 year ago - 2 comments

#62 - --proj option

Issue - State: closed - Opened by cutykaka over 1 year ago - 3 comments

#62 - --proj option

Issue - State: closed - Opened by cutykaka over 1 year ago - 3 comments

#61 - Monomorphic sites with easySFS from VCF file

Issue - State: closed - Opened by gsgarlata over 1 year ago - 1 comment

#61 - Monomorphic sites with easySFS from VCF file

Issue - State: closed - Opened by gsgarlata over 1 year ago - 1 comment

#60 - how to interpret folded sfs-vector?

Issue - State: closed - Opened by mennodejong1986 over 1 year ago - 2 comments

#60 - how to interpret folded sfs-vector?

Issue - State: closed - Opened by mennodejong1986 over 1 year ago - 2 comments

#59 - pop0 and pop1 notation in fastsimcoal2 outputs

Issue - State: closed - Opened by bchak10 over 1 year ago - 2 comments

#59 - pop0 and pop1 notation in fastsimcoal2 outputs

Issue - State: closed - Opened by bchak10 over 1 year ago - 2 comments

#58 - (Very minor issue) Wrong paper attached

Issue - State: closed - Opened by forianfinest over 1 year ago - 1 comment

#58 - (Very minor issue) Wrong paper attached

Issue - State: closed - Opened by forianfinest over 1 year ago - 1 comment

#57 - number of sites in datadict vs. folded sfs

Issue - State: closed - Opened by tida-one almost 2 years ago - 4 comments

#57 - number of sites in datadict vs. folded sfs

Issue - State: closed - Opened by tida-one almost 2 years ago - 4 comments

#56 - Trouble creating multidimesional SFSs

Issue - State: open - Opened by Yelows83 almost 2 years ago - 1 comment

#56 - Trouble creating multidimesional SFSs

Issue - State: open - Opened by Yelows83 almost 2 years ago - 1 comment

#55 - Generating pseudoreplicate SFS

Issue - State: closed - Opened by grcvhon almost 2 years ago - 9 comments

#54 - Plotting SFS

Issue - State: open - Opened by clorenzo1 almost 2 years ago - 1 comment

#54 - Plotting SFS

Issue - State: open - Opened by clorenzo1 almost 2 years ago - 1 comment

#53 - running easySFS on vcf produced by discoSNP

Issue - State: closed - Opened by clorenzo1 almost 2 years ago - 3 comments

#53 - running easySFS on vcf produced by discoSNP

Issue - State: closed - Opened by clorenzo1 almost 2 years ago - 3 comments

#52 - Analysis appears to run but no output folder or files

Issue - State: closed - Opened by jamesyboy01 almost 2 years ago - 12 comments

#52 - Analysis appears to run but no output folder or files

Issue - State: closed - Opened by jamesyboy01 almost 2 years ago - 12 comments

#51 - extra observations in some populations

Issue - State: closed - Opened by carolinapinapaez about 2 years ago - 3 comments

#51 - extra observations in some populations

Issue - State: closed - Opened by carolinapinapaez about 2 years ago - 3 comments

#50 - In the output, what do the 0s and 1s after the frequencies represent?

Issue - State: closed - Opened by mehakmadhura over 2 years ago - 1 comment

#50 - In the output, what do the 0s and 1s after the frequencies represent?

Issue - State: closed - Opened by mehakmadhura over 2 years ago - 1 comment

#49 - No module named 'dadi'

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

#49 - No module named 'dadi'

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

#48 - Monomorphic sites

Issue - State: closed - Opened by laura1hagemann2 over 2 years ago - 4 comments

#48 - Monomorphic sites

Issue - State: closed - Opened by laura1hagemann2 over 2 years ago - 4 comments

#47 - Monomorphic sites with VCF from stacks

Issue - State: closed - Opened by meganlsmith almost 3 years ago - 8 comments

#47 - Monomorphic sites with VCF from stacks

Issue - State: closed - Opened by meganlsmith almost 3 years ago - 8 comments

#46 - how to get sfs information for stairway plot 2

Issue - State: closed - Opened by ChenDepp almost 3 years ago - 7 comments

#46 - how to get sfs information for stairway plot 2

Issue - State: closed - Opened by ChenDepp almost 3 years ago - 7 comments

#45 - example vcf not provided

Issue - State: closed - Opened by cbird808 about 3 years ago - 2 comments

#45 - example vcf not provided

Issue - State: closed - Opened by cbird808 about 3 years ago - 2 comments

#44 - get a unfolded site frequency spectrum

Issue - State: closed - Opened by chenqing-1996 about 3 years ago - 4 comments

#43 - run easySFS.py error

Issue - State: closed - Opened by chenqing-1996 over 3 years ago - 7 comments

#43 - run easySFS.py error

Issue - State: closed - Opened by chenqing-1996 over 3 years ago - 7 comments

#42 - how to interpret results

Issue - State: closed - Opened by selasphoruskershaw over 3 years ago - 2 comments

#42 - how to interpret results

Issue - State: closed - Opened by selasphoruskershaw over 3 years ago - 2 comments

#41 - Sum of frequencies on projected DAF

Issue - State: closed - Opened by OliverPStuart over 3 years ago - 6 comments

#41 - Sum of frequencies on projected DAF

Issue - State: closed - Opened by OliverPStuart over 3 years ago - 6 comments

#40 - Zero DAF frequency bin grows in small projections

Issue - State: closed - Opened by OliverPStuart over 3 years ago - 1 comment

#40 - Zero DAF frequency bin grows in small projections

Issue - State: closed - Opened by OliverPStuart over 3 years ago - 1 comment

#39 - how can I choose the projection values

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

#39 - how can I choose the projection values

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

#38 - Issue when there are a lot of missed data in VCF file

Issue - State: closed - Opened by noscode over 3 years ago - 2 comments

#38 - Issue when there are a lot of missed data in VCF file

Issue - State: closed - Opened by noscode over 3 years ago - 2 comments

#37 - Mutation rate for iyprad output

Issue - State: closed - Opened by dylanHco over 3 years ago - 2 comments

#37 - Mutation rate for iyprad output

Issue - State: closed - Opened by dylanHco over 3 years ago - 2 comments

#36 - ancestral stat add

Issue - State: closed - Opened by sunshichao0916 over 3 years ago - 1 comment

#36 - ancestral stat add

Issue - State: closed - Opened by sunshichao0916 over 3 years ago - 1 comment

#35 - --proj

Issue - State: closed - Opened by schnappi-wkl over 3 years ago - 3 comments

#35 - --proj

Issue - State: closed - Opened by schnappi-wkl over 3 years ago - 3 comments

#34 - easySFS removes existing directories if the user is not careful with the -o flag

Issue - State: closed - Opened by wyoibc almost 4 years ago - 1 comment

#33 - NameError: name 'raw_input' is not defined

Issue - State: closed - Opened by janxkoci almost 4 years ago - 1 comment

#32 - projection changed to one snp per locus

Issue - State: closed - Opened by MaevaTecher over 4 years ago - 2 comments

#31 - Which individuals were used to calculate the SFS

Issue - State: closed - Opened by Jolvii85 over 4 years ago - 8 comments

#30 - multiSFS building fails

Issue - State: closed - Opened by meganlsmith over 4 years ago - 3 comments

#29 - ValueError: array is too big; `arr.size * arr.dtype.itemsize` is larger than the maximum possible size.

Issue - State: closed - Opened by EveTC over 4 years ago - 3 comments

#28 - MemoryError: Unable to allocate 72.3 PiB for an array with shape

Issue - State: closed - Opened by isisarantes over 4 years ago - 1 comment

#27 - no output files created

Issue - State: closed - Opened by isisarantes over 4 years ago - 3 comments

#26 - VCF input error: "TypeError: startswith first arg must be bytes or a tuple of bytes, not str"

Issue - State: closed - Opened by beausoleilmo almost 5 years ago - 4 comments

#25 - No module named tridiag

Issue - State: closed - Opened by PierreNois almost 5 years ago - 1 comment

#24 - Fixed xrange issue

Pull Request - State: closed - Opened by PhDMattyB about 5 years ago

#23 - file names in fastsimcoal2 folder

Issue - State: closed - Opened by smallfishcui about 5 years ago - 1 comment

#22 - missing data and projection values

Issue - State: closed - Opened by angelesdecara about 5 years ago - 17 comments

#21 - why sfs contained decimals?

Issue - State: closed - Opened by liuyanhu about 5 years ago - 2 comments

#20 - About the --proj parameter in easySFS

Issue - State: closed - Opened by Yun-HongWu about 5 years ago - 6 comments

#19 - multiSFS for 4 populations?

Issue - State: closed - Opened by MrLocuace over 5 years ago - 2 comments

#18 - NameError: name 'xrange' is not defined

Issue - State: closed - Opened by angelesdecara over 5 years ago - 4 comments

#17 - ImportError: No module named copyreg

Issue - State: closed - Opened by angelesdecara over 5 years ago - 4 comments

#16 - easySFS outfile.write error

Issue - State: closed - Opened by weniweni7 over 5 years ago - 7 comments

#15 - intersecting population set and vcf sample set

Issue - State: closed - Opened by ab08028 almost 6 years ago - 2 comments

#14 - Cite script?

Issue - State: closed - Opened by MrLocuace about 6 years ago - 2 comments

#13 - Weird SFS

Issue - State: closed - Opened by MrLocuace about 6 years ago - 11 comments

#12 - unfolded SFS

Issue - State: closed - Opened by BegonaMartinez over 6 years ago - 2 comments

GitHub / isaacovercast/easysfs issues and pull requests