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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
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49
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[BUG] Cant download using ascp
#220
BiomedicLJZ
opened
3 weeks ago
1
[BUG] gse_to_srp problems
#219
binbinL
closed
3 weeks ago
2
Specific srp seems to cause metadata download to freeze
#218
nasjr08
opened
2 months ago
0
Incosistencies with retrieving SRX data from different archives
#217
nasjr08
closed
2 months ago
1
[ENH] geo_download_links error handling
#216
alexhermida
opened
2 months ago
1
[BUG] All arrays must be of the same length
#215
Rohit-Satyam
opened
3 months ago
0
could you expend to support European Nucleotide Archive data
#214
lizhebio
opened
4 months ago
1
[BUG] srp-to-srr giving SRSs as result
#213
arcones
opened
4 months ago
3
[BUG] Metadata download only for a few run accessions, not for all the run accessions of the study
#212
cpavloud
closed
4 months ago
4
[BUG] missing run-related entries for experiments with high number of runs
#211
masarunakajima
opened
5 months ago
0
Not all attributes are being exported
#210
returnOfTheYeti
opened
5 months ago
6
fastq's URLs are empty
#209
NomiCentarix
opened
6 months ago
2
[BUG]Downloading issue
#208
OrigamiSheep
closed
6 months ago
1
[BUG] download error
#207
hh1985
closed
7 months ago
2
[BUG] Download error
#206
tzhu-bio
opened
7 months ago
1
[BUG] gse-to-srp error
#205
sumin5784
opened
7 months ago
1
[BUG] aspera
#204
NomiCentarix
opened
7 months ago
3
[BUG] Metadata download not only for the provided accession number
#203
cpavloud
closed
8 months ago
3
[BUG] aspera
#202
NomiCentarix
closed
8 months ago
3
[BUG] cannot download a single experiment from command line
#201
marcomoretto
opened
9 months ago
1
Fix GeoSearch elink using retmode xml
#200
jggatter
closed
10 months ago
5
Capture Biosample and Bioproject
#199
jggatter
closed
10 months ago
1
Fix typos SRAWeb -> SRAweb
#198
jggatter
closed
10 months ago
1
[ENH] Super useful package!
#197
pmagwene
opened
1 year ago
0
Filtering results by instrument type
#196
mlw22
closed
1 year ago
3
Data download is interrupted after a few minutes
#195
sert23
opened
1 year ago
7
Possible missing keys in esearch response results
#194
andrewdavidsmith
opened
1 year ago
1
ValueError: Value must be a nonnegative integer or None
#193
zhouxw27
closed
1 year ago
1
[BUG]
#192
andrewdavidsmith
closed
1 year ago
1
installation using conda fails with UnsatisfiableError
#191
nettanetta
closed
1 year ago
3
[BUG] Parsing error in gse-to-srp
#190
njspix
closed
1 year ago
1
[BUG] The error arises from setting a deprecated value for the "display.max_colwidth" option in pandas.
#189
xuzhougeng
closed
1 year ago
2
[ENH] Include data processing steps, reference to which the reads were aligned or if possible lab protocol into the main table
#188
ajandria
opened
1 year ago
1
[BUG] gse_to_srp returns an error in Python API
#187
ajandria
closed
1 year ago
1
[BUG] gse-to-srp not producing results
#186
forrest1988
closed
1 year ago
1
[BUG] varying number of columns in output
#185
bernt-matthias
opened
1 year ago
0
[BUG] linux-64 Conda version out of date
#184
half-adder
closed
1 year ago
7
Fix SRX -> SRR conversion
#183
tfehlmann
closed
1 year ago
3
[BUG] SRX to SRR produces incorrect results when multiple SRRs are present
#182
tfehlmann
closed
1 year ago
0
[BUG] requests.exceptions.ConnectionError
#181
Thanakron1997
closed
1 year ago
0
[ENH] Pysradb doesn't work on "superseries"
#180
gdolsten
opened
1 year ago
1
[ENH] MD5 value is not
#179
fatyang799
closed
1 year ago
1
Stats not saved in output file
#178
trinidadmartin
opened
1 year ago
3
Handle all links
#177
saketkc
closed
1 year ago
2
API rate limit
#176
josruirod
closed
1 year ago
1
[BUG] when one 'sra_url' is missing
#175
z5ouyang
closed
1 year ago
5
Attempt to fix #170 Mismatched gcp and AWS links
#174
cksajil
closed
1 year ago
6
Unable to parse xml response. Received: OrderedDict([('EXPERIMENT_PACKAGE_SET', OrderedDict([('Error', 'Internal Server Error (db)')]))])
#173
nayanvs
closed
1 year ago
4
[BUG] No results returned from db
#172
forrest1988
closed
1 year ago
4
[BUG] Default date range output
#171
bernt-matthias
opened
1 year ago
0
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