PoonLab MiCall-Lite issues

PoonLab / MiCall-Lite

Pipeline for processing FASTQ data from an Illumina MiSeq for human RNA virus (HIV, hepatitis C virus) genotyping

GNU Affero General Public License v3.0

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issues

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alignment of 10 million COVID19 genomes

#43 Shicheng-Guo closed 2 years ago
2
Validate MiCall on SARS-COV-2 Illumina data

#42 ArtPoon closed 4 years ago
24
Use projects.json file when supplied from command-line

#41 dfornika closed 4 years ago
0
projects.json file supplied via command-line is not used for analysis

#40 dfornika closed 4 years ago
0
User cannot specify custom JSON file

#39 ArtPoon closed 4 years ago
1
micall.core.remap.sam_to_conseqs: Use map() instead of itertools.imap()

#38 dfornika closed 4 years ago
0
Deprecated function 'itertools.imap'

#37 dfornika closed 4 years ago
3
revise installation instructions

#36 ArtPoon opened 5 years ago
0
HIV drug resistance

#35 Anastasiamiaomiao closed 5 years ago
9
generating counts is the slowest step

#34 ArtPoon opened 5 years ago
0
Error when --threads flag is used

#33 dfornika closed 5 years ago
3
Specify C99 standard when compiling

#32 dfornika closed 5 years ago
1
Clean up temp files

#31 ArtPoon closed 5 years ago
1
Provide Stanford HIVdb scoring workflow

#30 ArtPoon closed 5 years ago
4
How to with multi-file batch processing

#29 hihuhu closed 5 years ago
4
restore unit test suite

#28 ArtPoon opened 5 years ago
0
File read mode is deprecated

#27 ArtPoon closed 5 years ago
0
Provide example files

#26 ArtPoon closed 5 years ago
0
There are two problems when running MiCall

#25 Anastasiamiaomiao closed 5 years ago
18
Please Tag a Release to Facilitate Integration to Bioconda

#24 dfornika closed 5 years ago
3
.csv files generated by Micall do not contain data other than the headings

#23 rng64 closed 5 years ago
1
Bad magic number

#22 ArtPoon closed 5 years ago
2
gotoh2 not found after installation

#21 ArtPoon closed 5 years ago
2
Problems with usage

#20 rng64 closed 5 years ago
4
Couldn't download JSON from HTML editor

#19 ArtPoon closed 5 years ago
1
Loading arbitrary local JSON file

#18 ArtPoon closed 5 years ago
1
Prevent remote access to Python http server

#17 ArtPoon closed 5 years ago
1
Keep all buttons along top row

#16 ArtPoon closed 5 years ago
1
Switch .ondblclick event with .onclick for select menus

#15 ArtPoon closed 5 years ago
0
Initial load of JSON file

#14 ArtPoon closed 5 years ago
1
Display contents of JSON in web browser

#13 ArtPoon closed 5 years ago
0
JSON editing use cases

#12 ArtPoon closed 5 years ago
1
Launching JSON editor

#11 ArtPoon closed 5 years ago
2
Major problems installing MiCall-Lite on CentOS 7

#10 ArtPoon opened 6 years ago
3
File extension error when attempting to run micall on CentOS7

#9 ArtPoon opened 6 years ago
0
Allow user to specify path to bowtie2

#8 ArtPoon closed 5 years ago
0
Unregistered loader type

#7 ArtPoon closed 6 years ago
0
nuc and amino counts not getting written with latest commit

#6 ArtPoon closed 6 years ago
5
Problem with subdirectory having same name as module

#5 ArtPoon closed 6 years ago
0
Write INSTALL.md

#4 ArtPoon closed 6 years ago
0
Make most arguments optional

#3 ArtPoon closed 6 years ago
0
strip out cfe-specific code

#2 ArtPoon closed 6 years ago
0
replace gotoh with gotoh2

#1 ArtPoon closed 6 years ago
1