issues
search
rhpvorderman
/
sequali
Fast sequencing data quality metrics
GNU Affero General Public License v3.0
11
stars
0
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
Release 0.1.0
#48
rhpvorderman
closed
11 months ago
0
Deploy and test linux builds by default with ssse3 flag enabled.
#47
rhpvorderman
closed
11 months ago
0
Graphpolish
#46
rhpvorderman
closed
11 months ago
0
Sample overrepresented sequences evenly across the file.
#45
rhpvorderman
closed
11 months ago
0
Fix inline error in msvc
#44
rhpvorderman
closed
11 months ago
0
Use a smarter read finger print for deduplication estimation
#43
rhpvorderman
closed
11 months ago
0
Find overrepresented sequences using fragments
#42
rhpvorderman
closed
11 months ago
0
Proper deduplication estimate
#41
rhpvorderman
closed
11 months ago
0
Add asan test environment and fix several memory leaks.
#40
rhpvorderman
closed
11 months ago
0
Polish the report
#39
rhpvorderman
closed
11 months ago
0
Restructure metrics arrays
#38
rhpvorderman
closed
11 months ago
0
Require xopen version that allows python threads
#37
rhpvorderman
closed
11 months ago
1
Tags
#36
rhpvorderman
closed
11 months ago
0
Use readinto rather than read method
#35
rhpvorderman
closed
12 months ago
0
Add SSSE3 routine for decoding bam sequences
#34
rhpvorderman
closed
1 year ago
0
Add a BAM file parser to sequali
#33
rhpvorderman
closed
1 year ago
0
Greatly speed up adapter counter by using out of order execution
#32
rhpvorderman
closed
1 year ago
0
Add SSE2 routine for tiles
#31
rhpvorderman
closed
1 year ago
0
Store counts per length rather than storing per base counts for PerTileQuality
#30
rhpvorderman
closed
1 year ago
0
Always use staging
#29
rhpvorderman
closed
1 year ago
0
Add graphs for Nanopore
#28
rhpvorderman
closed
1 year ago
0
Make nanopore adapters unique, guess sequencing technology from file
#27
rhpvorderman
closed
1 year ago
0
Refactor reporting
#26
rhpvorderman
closed
1 year ago
0
Add a NanoStats module
#25
rhpvorderman
closed
1 year ago
0
Store sequences in twobit format. Make max unique sequences configurable
#24
rhpvorderman
closed
1 year ago
0
Use 1 million sequences rather than 100.000 to find any overrepresented ones.
#23
rhpvorderman
closed
1 year ago
0
Add base quality distribution, N content plot
#22
rhpvorderman
closed
1 year ago
0
Put adapters in a configuration file
#21
rhpvorderman
closed
1 year ago
0
Add overrepresentation table and deduplication graph
#20
rhpvorderman
closed
1 year ago
0
Improve plot quality
#19
rhpvorderman
closed
1 year ago
0
Refactor code to allow JSON report, add command line interface
#18
rhpvorderman
closed
1 year ago
0
Refactor code to allow JSON report. Add command line interface.
#17
rhpvorderman
closed
1 year ago
0
Add a progress bar
#16
rhpvorderman
closed
1 year ago
0
Titleparse
#15
rhpvorderman
closed
1 year ago
0
Use a staging array to have better cache locality for long reads.
#14
rhpvorderman
closed
1 year ago
0
Create an arrayview object to process whole chunks of records rather than individual records.
#13
rhpvorderman
closed
1 year ago
0
Fastqview
#12
rhpvorderman
closed
1 year ago
0
Rewrite duplication counter in C
#11
rhpvorderman
closed
1 year ago
0
Add per tile sequence quality module
#10
rhpvorderman
closed
1 year ago
0
Do not leave a 1-bit gap between words in the bitmatrix for adapterfinder
#9
rhpvorderman
closed
1 year ago
0
Rename the program to sequali
#8
rhpvorderman
closed
1 year ago
0
Sse2
#7
rhpvorderman
closed
1 year ago
0
Use nucleotide to index to simplify code and use smaller bitmatrices
#6
rhpvorderman
closed
1 year ago
0
Remove hardcoded 64 values
#5
rhpvorderman
closed
1 year ago
0
Add FastQC required counters for overrepresentation and adapter content
#4
rhpvorderman
closed
1 year ago
0
Add per sequence GC content and per sequence base quality plots
#3
rhpvorderman
closed
1 year ago
0
Use a C module instead of a Cython module
#2
rhpvorderman
closed
1 year ago
0
Initialize program
#1
rhpvorderman
closed
1 year ago
0
Previous