Ecosyste.ms: Issues

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GitHub / SchlossLab/schtools issues and pull requests

#52 - a

Issue - State: open - Opened by cafferychen777 about 1 year ago

#51 - Fix roxygen package doc syntax

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

#50 - Refactor read_dist()

Pull Request - State: open - Opened by kelly-sovacool over 1 year ago

#49 - Update citation info

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

#48 - Fix get_wildcards_tbl() - don't overwrite the seed

Pull Request - State: closed - Opened by kelly-sovacool almost 2 years ago

#47 - Release 0.4.0

Pull Request - State: closed - Opened by kelly-sovacool almost 2 years ago

#46 - Convert snakemake wildcards list to a tibble

Pull Request - State: closed - Opened by kelly-sovacool almost 2 years ago

#45 - Set message to FALSE in knitr opts

Pull Request - State: closed - Opened by kelly-sovacool almost 2 years ago

#44 - Fixes for ggplot2 v3.4.0 & tidyselect v1.2.0

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

#42 - Fix tests in advance of next ggplot2 release

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

#41 - Issues with next version of ggplot2

Issue - State: closed - Opened by thomasp85 about 2 years ago
Labels: bug

#40 - Add Sarah's theme

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

#39 - Create custom ggplot2 theme

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

#38 - Create function to calculate relative abundances

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

#37 - Create function to pool shared counts at any taxonomic level

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

#35 - Create log_snakemake() function

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

#34 - Prepare to release v0.2.1

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

#33 - Improve docs

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

#32 - Add label_html column to taxonomy dataframe for use with ggtext

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

#31 - Create schtools logo

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

#30 - Refactor read_tax()

Pull Request - State: closed - Opened by kelly-sovacool almost 3 years ago

#29 - Prepare release v0.1.0 for CRAN

Pull Request - State: closed - Opened by kelly-sovacool about 3 years ago

#28 - Write is_nondesc() to check whether variables are in non-descending order

Pull Request - State: closed - Opened by kelly-sovacool about 3 years ago - 1 comment

#27 - Simplify the unit test for set_knitr_opts()

Pull Request - State: closed - Opened by kelly-sovacool about 3 years ago

#26 - Check whether two numeric vectors are close_enough()

Pull Request - State: closed - Opened by kelly-sovacool about 3 years ago
Labels: feature

#25 - Rename the package to 'schtools'

Pull Request - State: closed - Opened by kelly-sovacool over 3 years ago
Labels: breaking change :skull_and_crossbones:

#24 - Round R Markdown numbers to 1 decimal place when >= 1

Pull Request - State: closed - Opened by kelly-sovacool over 3 years ago - 1 comment

#23 - Pick a new name for the package

Issue - State: closed - Opened by kelly-sovacool about 4 years ago - 3 comments

#22 - Parse taxonomy file to dataframe

Pull Request - State: closed - Opened by NLesniak about 4 years ago - 3 comments

#21 - Pat's R Markdown helper functions

Pull Request - State: closed - Opened by kelly-sovacool about 4 years ago - 1 comment

#19 - Pat's inline_hook() for R Markdown papers

Issue - State: closed - Opened by kelly-sovacool about 4 years ago

#18 - Function to set Pat's default knitr options

Issue - State: closed - Opened by kelly-sovacool about 4 years ago

#17 - Read sequencing error files for easy insertion in R Markdown

Issue - State: open - Opened by kelly-sovacool about 4 years ago
Labels: feature

#16 - Parse summary.single files for diversity metrics

Issue - State: open - Opened by kelly-sovacool about 4 years ago
Labels: feature

#15 - Create data frame for ML from metadata & shared files

Issue - State: open - Opened by kelly-sovacool about 4 years ago - 3 comments
Labels: feature

#14 - Parse taxonomy files to a tidy format

Issue - State: closed - Opened by kelly-sovacool about 4 years ago

#13 - Refactor read_dist()

Issue - State: open - Opened by kelly-sovacool about 4 years ago - 4 comments

#12 - Calculate the fraction of reads that mapped during closed-reference clustering

Issue - State: open - Opened by kelly-sovacool about 4 years ago
Labels: feature

#11 - Functions to select sequence subsamples based on different weighting methods

Issue - State: open - Opened by kelly-sovacool about 4 years ago
Labels: feature

#10 - Revamp the package

Pull Request - State: closed - Opened by kelly-sovacool about 4 years ago

#9 - Downloading Error

Issue - State: closed - Opened by emarques1 over 4 years ago

#8 - fixed problem with transposed upper triangle in read.dist

Pull Request - State: closed - Opened by nbaxter13 almost 8 years ago

#7 - Add plot for LDA score

Issue - State: closed - Opened by kdiverson over 11 years ago - 1 comment

#6 - Look into unit testing

Issue - State: closed - Opened by kdiverson over 11 years ago
Labels: task

#5 - Read In Share and Design files

Issue - State: closed - Opened by ahanna over 11 years ago

#4 - check *.dist functions

Issue - State: closed - Opened by kdiverson over 11 years ago

#3 - Add function to create stacked barchart of abundance

Issue - State: closed - Opened by kdiverson over 11 years ago - 1 comment
Labels: task

#2 - Add function to plot rarefaction curves

Issue - State: closed - Opened by kdiverson over 11 years ago - 1 comment
Labels: task

#1 - Add function to plot PCoA output

Issue - State: closed - Opened by kdiverson over 11 years ago