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saketkc
/
pysradb
Package for fetching metadata and downloading data from SRA/ENA/GEO
https://saketkc.github.io/pysradb
BSD 3-Clause "New" or "Revised" License
303
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49
forks
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[BUG] Mismatched gcp and AWS links
#170
saketkc
closed
1 year ago
1
[BUG] Failed to establish a new connection: [Errno -2] Name or service not known
#169
Thanakron1997
closed
1 year ago
1
[BUG] keyError: 'RUN'
#168
Thanakron1997
closed
1 year ago
2
KeyError: 'run_accession'
#167
ChongLC
closed
1 year ago
2
[BUG] Example download doesn't work
#166
MrOlm
closed
1 year ago
2
[BUG] gsm_to_srx false positives (reanalysis)
#165
Maarten-vd-Sande
closed
1 year ago
1
[ENH] Filter by publicly available datasets
#164
markziemann
closed
2 years ago
2
[BUG] ENA url missing
#163
Maarten-vd-Sande
closed
2 years ago
2
IO Error - No connection adapters for NCBI
#162
BatheFu
closed
2 years ago
1
[BUG] KeyError: '@url'
#161
Maarten-vd-Sande
closed
2 years ago
4
UnboundLocalError
#160
BiomedicLJZ
closed
2 years ago
5
fix xmltodict parse
#159
zhoulytwinyu
closed
2 years ago
3
[BUG] 'NoneType' object has no attribute 'entrytype' error
#158
shuchaa
closed
2 years ago
2
[QUESTION] SRAdb up to date?
#157
snayfach
closed
2 years ago
5
[BUG] Example download from READEME doesn't work
#156
xapple
closed
2 years ago
5
pysradb download doesn't work[BUG]
#155
mzavolan
closed
2 years ago
3
[BUG] EnaSearch failing depending on search term ordering
#154
xapple
closed
2 years ago
7
[BUG]
#153
cyto-matan
closed
2 years ago
1
Getting study info from SRR id
#152
eul2021
closed
2 years ago
3
`pysradb metadata --detailed` gives `KeyError` for some accessions
#151
jbloom
closed
2 years ago
1
Fix typos in README
#150
mphschmitt
closed
2 years ago
1
Do not exit on no search hits
#149
saketkc
closed
2 years ago
1
Some problem with errors in `pysradb metadata`
#148
jbloom
closed
2 years ago
1
delimiter in `pysradb metadata --detailed` output
#147
jbloom
closed
1 year ago
4
Pub date
#146
bscrow
closed
2 years ago
2
[BUG] month & day swapped for publication_date?
#145
gfudenberg
closed
2 years ago
3
Ena bug
#144
bscrow
closed
2 years ago
2
[BUG] ENA search ignores organism when query is specified
#143
siebrenf
closed
2 years ago
3
[BUG] ENA search cannot handle dashes in the strategy argument
#142
siebrenf
closed
2 years ago
2
unpin `pandas`?
#141
jbloom
closed
2 years ago
2
Bump tqdm from 4.61.2 to 4.62.1
#140
dependabot[bot]
closed
3 years ago
1
Bump pandas from 1.3.1 to 1.3.2
#139
dependabot[bot]
closed
3 years ago
1
Json decode error (too many inputs)
#138
Maarten-vd-Sande
closed
1 year ago
4
Bump tqdm from 4.61.2 to 4.62.0
#137
dependabot[bot]
closed
3 years ago
2
Bump pandas from 1.3.0 to 1.3.1
#136
dependabot[bot]
closed
3 years ago
1
Bump requests from 2.25.1 to 2.26.0
#135
dependabot[bot]
closed
3 years ago
1
Bump tqdm from 4.61.1 to 4.61.2
#134
dependabot[bot]
closed
3 years ago
1
Bump pandas from 1.2.5 to 1.3.0
#133
dependabot[bot]
closed
3 years ago
1
Bump pandas from 1.2.4 to 1.2.5
#132
dependabot[bot]
closed
3 years ago
1
Bump tqdm from 4.61.0 to 4.61.1
#131
dependabot[bot]
closed
3 years ago
1
Bump tqdm from 4.60.0 to 4.61.0
#130
dependabot[bot]
closed
3 years ago
1
Add support for downloading GEO files
#129
DevangThakkar
closed
3 years ago
5
Gsm to gse fix
#128
DevangThakkar
closed
3 years ago
2
[BUG] gsm-to-gse fails to produce output
#127
DevangThakkar
closed
3 years ago
2
Bump pandas from 1.2.3 to 1.2.4
#126
dependabot[bot]
closed
3 years ago
1
Skipped SRX entries?
#125
romaingroux
closed
3 years ago
5
Bump tqdm from 4.59.0 to 4.60.0
#124
dependabot[bot]
closed
3 years ago
1
Naming of folders with sra files using pysradb
#123
sreejata-b
closed
2 years ago
2
Bump tqdm from 4.58.0 to 4.59.0
#122
dependabot[bot]
closed
3 years ago
1
Bump pandas from 1.2.2 to 1.2.3
#121
dependabot[bot]
closed
3 years ago
1
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