shendurelab MPRAflow issues

shendurelab / MPRAflow

A portable, flexible, parallelized tool for complete processing of massively parallel reporter assay data

Apache License 2.0

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issues

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Error in running example script

#84 pc2001 closed 1 month ago
0
Single-end sequences to associate with the barcodes

#83 Will19902225 opened 6 months ago
1
Error: Unable to run job: Job was rejected because job requests unknown queue "short"

#82 suntay-jm opened 8 months ago
5
map_element_barcodes (assign) [100%] 1 of 1, failed: 1 ✘

#81 Will19902225 opened 9 months ago
5
Not incorporating labels into MPRAnalyze inputs

#80 calhoujd closed 9 months ago
3
Issue with barcode association in MPRAflow

#79 tsadlon opened 1 year ago
1
Early trunction of barcode fastq file during association step due to known error in pysam < 0.16.0

#78 RZiffra opened 1 year ago
0
Error at Process `generate_mpranalyze_inputs (1)` stage

#77 Minb88 opened 1 year ago
2
Count SE BC + UMI data

#76 zkliesmete opened 1 year ago
0
Run count.nf：ERROR ~ No such variable: cond

#75 huziouziou closed 1 year ago
3
Error replicating the MPRA basic association on 5’/5’ WT MRPA data in the HEPG2 cell line from Klein J., Agarwal, V., Keith, A., et al. 2019

#74 kimuchenje opened 2 years ago
1
Make threshold parameter numeric

#73 pjlaw opened 2 years ago
0
Using MPRAflow on data sequenced using different sequencing set-up

#72 erykdun-dioscuri closed 1 year ago
1
Problems with barcode association analysis

#71 clytiaxu closed 2 years ago
0
No s_merged.bam output

#70 Minb88 closed 2 years ago
3
Empty counts files

#69 renberg opened 2 years ago
4
AttributeError: Can only use .str accessor with string values, which use np.object_ dtype in pandas

#68 nli8888 closed 2 years ago
9
Filtering for multiple cigar strings

#67 jmbeesley closed 2 years ago
3
Different "Process `create_BAM` input file name collision" issue

#66 renberg closed 2 years ago
6
v2.3.5 release

#65 visze closed 2 years ago
0
fix: merge label hardcoded BC length

#64 visze closed 2 years ago
0
fix: merge label hardcoded BC length

#63 visze closed 2 years ago
0
Process `create_BAM` input file name collision -- There are multiple input files for each of the following file names: null

#62 Will19902225 closed 2 years ago
6
Fix bugs; implement SNP workflow

#61 ScottNortonPhD opened 2 years ago
0
significant speed up of insert count normalization

#60 lotard closed 2 years ago
1
>= mapq is usead instead of > mapq

#59 visze closed 2 years ago
0
>= mapq is usead instead of > mapq

#58 visze closed 2 years ago
0
bump to development fix

#57 visze closed 2 years ago
0
fix of merge_all.py script

#56 visze closed 2 years ago
0
Typo affecting arithmetic in line 16 of src/merge_all.py

#55 lucaskampman closed 2 years ago
2
fixing readthedocs documentation

#54 visze closed 3 years ago
0
Update documentation

#53 visze closed 3 years ago
0
docs assoc basic example update

#52 visze closed 3 years ago
0
Help understanding how to process my data

#51 SebastienNin closed 3 years ago
5
failed at calc_correlations step

#50 xunchen85 closed 3 years ago
2
get bugfixes in development

#49 visze closed 3 years ago
0
fixes empty deisgn file

#48 visze closed 3 years ago
0
Error in count.nf process create_BAM_noUMI

#47 townsk closed 2 years ago
16
Running MPRAflow without internet

#46 xunchen85 closed 3 years ago
2
Error when trying the basic association workflow

#45 SebastienNin closed 3 years ago
11
Expected barcode promiscuousness

#44 roryk closed 3 years ago
2
amended experiment.csv

#43 lotard closed 3 years ago
0
remove row.rna/dna bug in noUMI workflow

#42 lotard closed 3 years ago
0
Association filtering steps

#41 colinshew closed 2 years ago
4
Error with map_element_barcodes during Assocation: AttributeError: Can only use .str accessor with string values!

#40 townsk closed 2 years ago
6
New MPRAflow 2.3 release

#39 visze closed 3 years ago
0
Create new association for saturation muatgenesis workflow

#38 visze closed 3 years ago
0
example: calc_correlations fails due to low UMI/BC numbers

#37 lotard closed 3 years ago
3
BassicAssociation: filter_barcodes error - issue with pyarrow

#36 townsk closed 3 years ago
8
remove "windows" characters in design fasta

#35 visze closed 3 years ago
0