waldronlab curatedMetagenomicDataCuration issues

waldronlab / curatedMetagenomicDataCuration

Sample Metadata Curation for curatedMetagenomicData

https://waldronlab.io/curatedMetagenomicDataCuration/

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issues

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Error getting curated metagenomics data

#80 jayeech opened 19 hours ago
0
Wrong study_name

#79 shbrief opened 4 weeks ago
0
WindTT_2020 is missing NCBI_accession values

#78 harper357 opened 5 months ago
0
days_from_first_collection inaccuracies in HMP_2019_ibdmdb

#76 mruehlemann closed 9 months ago
2
WenC_2017 and ChengpingW_2017

#75 Matt-Schmitz opened 11 months ago
0
Assay Sometimes Has Zero Columns When counts = TRUE

#77 schifferl opened 1 year ago
1
Add ZhangX_2015 study

#74 schifferl opened 1 year ago
3
Add 4 studies to curatedMetagenomicDataCuration

#73 brymerr921 closed 1 year ago
0
How to run multiple SRR runs?

#72 zckoo007 opened 1 year ago
0
Add all HMP 1 healthy participants

#71 lwaldron opened 1 year ago
0
typo steroids

#70 SilasK closed 1 year ago
1
bodysite for HMP_2012 anerior_nares samples should be "nose" or "external nares", not "nasal cavity"

#69 lwaldron opened 2 years ago
1
VincentC_2016 Antibiotics Metadata do not match published paper

#68 cmirzayi closed 1 year ago
3
PehrssonE_2016 metadata file contains duplicate entries

#67 schifferl closed 2 years ago
2
remove sample_id MSM6J2HB from HMP_2019_ibdmdb

#66 schifferl closed 2 years ago
2
age doesn't correspond to age_category in some samples

#65 sdgamboa closed 2 years ago
1
Control sample mislabeled as CRC in YuJ_2015 dataset

#64 CraigGin closed 2 years ago
3
why in CosteaPI_2017 some samples only single end?

#63 luzhang321 closed 2 years ago
5
duplicate samples in NielsenHB_2014 & LeChatelierE_2013

#62 luzhang321 opened 2 years ago
2
SmitsSA_2017 sample info doesn't match supp.table

#61 luzhang321 closed 2 years ago
2
QinN_2014: duplicate accession

#60 qifei9 closed 2 years ago
1
KarlssonFH_2013: Nothing has been found for accessions

#59 qifei9 closed 2 years ago
1
XieH_2016 data, data accession number differ & disease status confused

#58 luzhang321 closed 2 years ago
2
CosteaPI_2017 disease status, healthy?

#57 luzhang321 closed 2 years ago
9
trailing decimal zero in a few variables

#56 schifferl closed 3 years ago
2
change PMID specifications

#55 schifferl closed 3 years ago
1
change col.name variables

#54 schifferl closed 3 years ago
7
add col.class column

#53 schifferl closed 3 years ago
1
Update Bengtsson-PalmeJ_2015_metadata.tsv

#52 edoardopasolli closed 3 years ago
0
PMID for VatanenT_2016 is incorrect

#50 cmirzayi closed 3 years ago
0
Cleanup/rename antibiotics_family column in combined metadata table

#51 cmirzayi opened 3 years ago
7
Add datasite_name to template.csv

#48 jwokaty closed 3 years ago
0
Merge smk508 branch

#47 lwaldron closed 2 years ago
1
Combined Metadata Warnings

#46 jwokaty closed 3 years ago
8
write data/combined_metadata.rda

#44 lwaldron closed 3 years ago
3
make sure get_metadata() supports all studies

#43 lwaldron closed 3 years ago
2
Additional metadata for Arumugam/Yu 2015, Hannigan 2018

#42 lwaldron closed 3 years ago
3
Drafted an unpublished IBD Dataset from 2012

#41 smk508 closed 3 years ago
2
Drafted a metadata file for an unpublished study on SRA

#40 smk508 closed 3 years ago
1
Create function to add ontology columns to metadata table

#39 lwaldron opened 3 years ago
1
Create function to load a curated metadata file by study name

#38 lwaldron closed 3 years ago
1
Create a function that lists available curated metadata file names or file paths

#37 lwaldron closed 3 years ago
1
Create a function that returns merged metadata

#36 lwaldron closed 3 years ago
1
fix build badge

#35 lwaldron opened 3 years ago
1
syntax checking results not updating

#34 lwaldron closed 3 years ago
1
Typo in Heitz-BuschartA_2016

#32 edoardopasolli closed 3 years ago
4
References updated in next update?

#31 morganx closed 4 years ago
6
A tiny little curation typo

#33 morganx closed 4 years ago
4
HMP2012: posterior fornix samples are incorrectly tagged as oral cavity

#30 schifferl closed 5 years ago
2
BMI in WenC_2017_metadata.tsv

#29 kevinVervier closed 5 years ago
2