Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / sanjaynagi/AnoPrimer issues and pull requests

#63 - update gcs buckets

Pull Request - State: closed - Opened by sanjaynagi about 1 month ago

#61 - Improve primer params options, funestus bugfix from v2.0.5

Pull Request - State: closed - Opened by sanjaynagi 4 months ago

#60 - fix probe targeting

Pull Request - State: closed - Opened by sanjaynagi 4 months ago

#58 - update documentation after refactor

Issue - State: closed - Opened by sanjaynagi 4 months ago

#57 - allow later versions of primer3-py

Issue - State: closed - Opened by sanjaynagi 4 months ago

#56 - Show exon exon junction clearly in plot

Issue - State: closed - Opened by sanjaynagi 4 months ago

#55 - Add primer spans to dataframe and round floats

Pull Request - State: closed - Opened by sanjaynagi 4 months ago

#54 - Fixes for one based pairs

Pull Request - State: closed - Opened by sanjaynagi 4 months ago

#53 - one based numbering of primer pairs

Pull Request - State: closed - Opened by sanjaynagi 4 months ago

#52 - Fix legend in `plot_primer_locs()`

Pull Request - State: closed - Opened by sanjaynagi 4 months ago

#51 - fix legend in plot_primer_locs()

Issue - State: closed - Opened by sanjaynagi 4 months ago

#50 - start primer pair numbering from 1, not 0

Issue - State: closed - Opened by sanjaynagi 4 months ago - 1 comment

#48 - Remove author line from nb intros

Pull Request - State: closed - Opened by sanjaynagi 4 months ago

#47 - refactor AnoPrimer

Pull Request - State: closed - Opened by sanjaynagi 4 months ago - 1 comment

#46 - refactor and create results class with methods

Issue - State: closed - Opened by sanjaynagi 5 months ago - 3 comments

#45 - add primer3 options from multiply

Issue - State: closed - Opened by sanjaynagi 6 months ago

#44 - move ag3/af1 to after species selection

Pull Request - State: closed - Opened by sanjaynagi 9 months ago

#43 - Change package name to AnoPrimer

Pull Request - State: closed - Opened by sanjaynagi about 1 year ago

#42 - round afs in plot_snp_frequencies()

Pull Request - State: closed - Opened by sanjaynagi over 1 year ago

#41 - check my oligo and add tests

Pull Request - State: closed - Opened by sanjaynagi over 1 year ago

#40 - fix for numexpr bug - replace pd.query() '@' usage with f-strings

Pull Request - State: closed - Opened by sanjaynagi over 1 year ago

#39 - Forbidden control characters in expression in Workshop 6's module 4

Issue - State: closed - Opened by jonbrenas over 1 year ago - 4 comments

#38 - make a faq on the documentation

Issue - State: open - Opened by sanjaynagi over 1 year ago

#37 - fix bug in designPrimers()

Pull Request - State: closed - Opened by sanjaynagi over 1 year ago

#36 - docs

Pull Request - State: closed - Opened by sanjaynagi over 1 year ago

#35 - add contig to span

Pull Request - State: closed - Opened by sanjaynagi over 1 year ago

#34 - add genomic span

Pull Request - State: closed - Opened by sanjaynagi over 1 year ago

#33 - add genomic primer span to primer df

Issue - State: closed - Opened by sanjaynagi over 1 year ago

#32 - Support for and pin primer3-py v2.0.0

Pull Request - State: closed - Opened by sanjaynagi over 1 year ago

#31 - Add support for primer3-py 2.0.0

Issue - State: closed - Opened by sanjaynagi over 1 year ago

#30 - Upgrade Python dependency

Pull Request - State: closed - Opened by alimanfoo over 1 year ago - 3 comments

#29 - Cannot install on Python 3.10

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

#28 - add docstrings to all public functions, make jupyter book

Issue - State: closed - Opened by sanjaynagi almost 2 years ago

#27 - af1 support

Pull Request - State: closed - Opened by sanjaynagi about 2 years ago - 1 comment

#26 - add funestus support

Issue - State: closed - Opened by sanjaynagi about 2 years ago

#25 - exon-exon option and docstring

Pull Request - State: closed - Opened by sanjaynagi about 2 years ago - 1 comment

#24 - make exon-exon junctions for cDNA optional

Issue - State: closed - Opened by sanjaynagi about 2 years ago

#23 - feedback when primer design fails, designPrimers()

Pull Request - State: closed - Opened by sanjaynagi about 2 years ago

#22 - remove contig argument, use region string. prepare_sequence() function

Pull Request - State: closed - Opened by sanjaynagi about 2 years ago - 1 comment

#21 - Change target argument to region string

Issue - State: closed - Opened by sanjaynagi about 2 years ago

#20 - in long notebook move ag1000g cohort choice in colab form at beginning

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

#19 - changing use of qPCR to cDNA

Pull Request - State: closed - Opened by sanjaynagi over 2 years ago - 1 comment

#18 - allow the design of cDNA primers + probe

Issue - State: open - Opened by sanjaynagi over 2 years ago

#17 - rename qPCR to cDNA

Issue - State: closed - Opened by sanjaynagi over 2 years ago

#16 - A scoring function for oligo binding

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

#15 - rename notebooks

Pull Request - State: closed - Opened by sanjaynagi over 2 years ago

#14 - change save parameter to out_dir

Pull Request - State: closed - Opened by sanjaynagi over 2 years ago - 1 comment

#13 - allow user to configure paths to save outputs to

Issue - State: closed - Opened by sanjaynagi over 2 years ago

#12 - add support to check pre-existing primers

Issue - State: closed - Opened by sanjaynagi over 2 years ago

#11 - remove setup.py, add snakeviz to pyproject.toml

Pull Request - State: closed - Opened by sanjaynagi over 2 years ago

#10 - optimise AgamPrimer with snakeviz and numba

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

#9 - rename internal functions to begin with _

Pull Request - State: closed - Opened by sanjaynagi over 2 years ago

#8 - Declare dependencies in package metadata

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

#7 - add blast support with gget

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

#6 - add tests and CI with github actions

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

#5 - add sample query option to Ag1000g pop selection

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

#4 - report sample size of Ag1000g pops

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

#3 - add support for CNVs

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

#2 - support for probes

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

#1 - report exact alternate alleles

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