Comments (3)
Okay, that totally didn't work:
Program TotalRecords R2_Discarded R1_Discarded R2_Length SE_Out SE_Length Ignored TotalReadsInput PE_In PE_Out SE_In SE_Left_Trim Sins Replaced SE_Discarded R2_Right_Trim R1_Left_Trim SE_Right_Trim R1_Right_Trim R1_Length R2_Left_Trim Overlap_BPs Lins
Super-Deduper 267139 0 0 66367161 0 0 0 0 0 264411 0 0 0 2728 0 0 0 0 0 66367161 0 0 0
Program Q-Trim 264411 14 0 65862254 14 0 0 0 0 264397 0 0 0 0 0 496200 231 0 440264 65926666 5193 0 0
Program Overlapper 264411 0 0 24600101 163746 41630620 0 0 0 98694 0 0 0 0 1971 0 0 0 0 24669593 0 0 0
from htstream.
I'm not sure I like this stats output format, for one I can't tell what some of these actually mean, I get that you need something that will append as you go, but seems to leave out a lot of stats that are sub-app specific, and doesn't really allow for the flexibility of new apps (new stats) etc. Nor does it offer an easy way to summarize and then compare across samples. SO might I suggest a json formatted output, that can then be read into a post processing app (in R maybe) and certain keys can be picked up and summarized. One of the huge advantages in HTStream is that others can create apps that can also go into the stream, but abiding by a stats table may limit their usefulness, a json formatted file will then offer that flexibility.
from htstream.
no longer relevant
from htstream.
Related Issues (20)
- hts_SeqScreener enhancements for bigger references
- hts_Primer doesn't report fragments and basepairs_in
- Feature downgrade actually, remove -a option from SuperD
- -m (minLength) option removed from hts_QWindowTrim, but does not exist in hts_CutTrim HOT 3
- Flag use HOT 1
- Is "percentage-hits" calculated properly for SeqScreener? HOT 1
- SuperDeduper ignoring reads HOT 6
- hts_Primers doesn't seem to read multi-fasta files correctly
- hts_Primers - error message HOT 4
- Version incorrect and CMAKE_PREFIX_PATH not working HOT 5
- How to cite HTStream? :-) HOT 2
- hts_LengthFilter is missing from the documentation!
- citation? HOT 2
- Add to CutTrim, trim to length from 5' or 3'
- pointer error in hts_Stats HOT 1
- Compiling from source fails on Ubuntu 22.04.1 HOT 2
- Remaining adapter sequence
- Order of input files to hts_SeqScreener changes hits reported when R1/R2 lengths differ
- "no such file or directory" error HOT 2
- munmap_chunk(): invalid pointer error HOT 3
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
-
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
-
TensorFlow
An Open Source Machine Learning Framework for Everyone
-
Django
The Web framework for perfectionists with deadlines.
-
Laravel
A PHP framework for web artisans
-
D3
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
-
Recommend Topics
-
javascript
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
-
web
Some thing interesting about web. New door for the world.
-
server
A server is a program made to process requests and deliver data to clients.
-
Machine learning
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
-
Visualization
Some thing interesting about visualization, use data art
-
Game
Some thing interesting about game, make everyone happy.
Recommend Org
-
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
-
Microsoft
Open source projects and samples from Microsoft.
-
Google
Google ❤️ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from htstream.