hyunhwan-jeong SalmonTE issues

hyunhwan-jeong / SalmonTE

SalmonTE is an ultra-Fast and Scalable Quantification Pipeline of Transpose Element (TE) Abundances

GNU General Public License v3.0

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issues

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make my own index

#81 h20gg702 opened 2 weeks ago
4
Rationale for using old salmon version

#80 tycho-kirchner opened 2 months ago
0
statistical analysis, image understanding, selection criteria

#79 Xiangruc opened 4 months ago
0
Exiting because a job execution failed. Look above for error message

#78 sophimagine opened 6 months ago
1
error executing - snakemake uses strict mode

#77 Kiliankleemann opened 10 months ago
0
snakelike bash

#76 Kiliankleemann opened 10 months ago
1
Quant mode seg fault due to erroneous functional call following salmon quant

#75 michaelSkaro opened 1 year ago
2
Error in rule run_salmon_fq

#74 h20gg702 opened 1 year ago
3
sequence for reference

#73 wjyzidane closed 1 year ago
1
Why the results of quant mode are not integer?

#72 gxAlan233 closed 1 year ago
2
Human fasta reference

#71 smanessi closed 1 year ago
1
job execution failed

#70 sulevk closed 1 year ago
6
SalmonTE example doesn't work

#69 sulevk closed 1 year ago
1
Exiting because a job execution failed.

#68 Bioleonard opened 2 years ago
2
NameError in line 24 of /SalmonTE-master/snakemake/Snakefile.paired: name 'directory' is not defined

#67 Gemma-Zhang-326 closed 2 years ago
1
Syntax error in SalmonTE.py

#66 aditigopalan closed 2 years ago
2
job execution failed --one of the commands exited with non-zero exit code

#65 lgallegovillar closed 2 years ago
2
"Non-supported" species

#64 amitjavilaventura closed 1 year ago
1
coordinates of the TEs in clades.csv

#63 Xiaofei-git closed 2 years ago
2
why not integer with --exprtype=count option?

#62 Xiaofei-git closed 2 years ago
2
SalmonTE quant outputs empty EXPR.csv file using AWS Batch and docker image

#61 Xiaofei-git closed 2 years ago
10
OSError: [Errno 8] Exec format error_ arm64_using a VM

#60 lgallegovillar closed 2 years ago
1
condition.csv and MAPPING_INFO.csv, and mixed PE and SR data in input fastq folder?

#59 Xiaofei-git closed 2 years ago
2
how to handle technical replicates

#58 lgallegovillar closed 2 years ago
0
problem to run salmon on macOS arm64 Big_Sur

#57 lgallegovillar closed 2 years ago
2
error: Failed to solve scheduling problem with ILP solver

#56 Shirleyyyyyy closed 1 year ago
3
SyntaxError on test data running SalmonTE

#55 Xiaofei-git closed 2 years ago
10
issues with index output

#54 ncnlll closed 3 years ago
2
to build indices

#53 amitpande74 closed 2 years ago
1
running paired end data with SalmonTE

#52 amitpande74 closed 3 years ago
2
command line query

#51 amitpande74 closed 3 years ago
0
How to build a local index

#50 zya226 closed 1 year ago
6
Test example failed

#49 olferievm closed 3 years ago
5
Arabidopsis Reference

#48 EsperanzaDai closed 1 year ago
2
Remove Snakemake lock

#47 ftabaro closed 1 year ago
0
Cannot run SalmonTE in Snakemake pipeline

#46 ftabaro closed 1 year ago
6
Repeats annotation

#45 AlicePsyche closed 1 year ago
0
How can I obtain the location where reads map to TEs

#44 CPTPaso closed 3 years ago
1
One of input files can be paired to multiple files

#43 mbk0asis closed 3 years ago
1
Obtain the chromosome (start/end) position after running SalmonTE.py quant

#42 ferygood closed 4 years ago
2
SalmonTE test condition problem?

#41 savytskanatalia closed 4 years ago
4
fasta files as input

#40 savytskanatalia closed 4 years ago
2
condition problems

#39 nrius closed 4 years ago
4
Extract Reads similar to TE sequences

#38 juanb001 closed 1 year ago
2
run_salmon_fq and EXPR.csv file not found error

#37 shreya1704 closed 4 years ago
4
Confusion about mapping reads to repetitive elements.

#36 broochpawN closed 4 years ago
4
Creation of index with fasta

#35 fripeki closed 4 years ago
4
Error using SalmonTE

#34 SalimMegat closed 1 year ago
11
salmonTe

#33 SalimMegat closed 5 years ago
3
snakemake error - FileNotFoundError: [Errno 2] No such file or directory: EXPR.csv

#32 pillailab closed 5 years ago
5