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s4hts
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HTStream
A high throughput sequence read toolset using a streaming approach facilitated by Linux pipes
https://s4hts.github.io/HTStream/
Apache License 2.0
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Regression script
#213
joe-angell
closed
4 years ago
2
Length template option 3
#212
joe-angell
closed
4 years ago
6
Length template test option 2
#211
joe-angell
closed
4 years ago
0
Length template test
#210
joe-angell
closed
4 years ago
0
adding clang build as it catches some extra warnings
#209
joe-angell
closed
4 years ago
0
AND the biggie, move HTStream to a new Org as no-one involved is apart of IBEST anymore
#208
msettles
closed
4 years ago
20
MultiQC report support
#207
msettles
opened
4 years ago
0
New documentation under master /doc
#206
msettles
opened
4 years ago
0
Rework PolyATTrim to be "fragment" oriented parameters.
#205
msettles
opened
4 years ago
0
multicore version of Overlapper and SeqScreener, SuperDeduper?
#204
msettles
opened
4 years ago
0
Split screener across multifasta file
#203
msettles
opened
4 years ago
0
add basepairs in to each app and to fragments
#202
msettles
closed
4 years ago
1
add basepairs counter (json output) to all apps
#201
msettles
closed
4 years ago
1
Length filter
#200
keithgmitchell
closed
4 years ago
1
Create CONTRIBUTING.md
#199
msettles
closed
4 years ago
0
Create CODE_OF_CONDUCT.md
#198
msettles
closed
4 years ago
0
Remove discard
#197
msettles
closed
4 years ago
1
New app hts_LengthFilter
#196
msettles
closed
4 years ago
1
Overlapper adapter mods
#195
msettles
closed
4 years ago
0
Add file arg to append, removed depricated, small param updates
#194
msettles
closed
4 years ago
0
add log file arg to -A --append-stats-file so that we use either -A OR -L, but not both are needed
#193
msettles
closed
4 years ago
2
Remove old py stuff - cleanup
#192
msettles
closed
4 years ago
0
Missing an instance of checking for min-length in Overlapper, added i…
#191
msettles
closed
4 years ago
0
removing extra newline
#190
joe-angell
closed
4 years ago
0
Major overhaul of the json output
#189
msettles
closed
4 years ago
0
auto generating version.h
#188
joe-angell
closed
4 years ago
3
switching to apt-get
#187
joe-angell
closed
4 years ago
0
Implement changes Sam made 9 months ago, but never merged
#186
msettles
closed
4 years ago
0
Primer edits
#185
msettles
closed
4 years ago
0
Should the HTStream version be included in the log file?
#184
samhunter
closed
4 years ago
2
Expanded stats, add bases by cycle and quality by cycle matrices
#183
msettles
closed
4 years ago
0
github workflow integration
#182
joe-angell
closed
4 years ago
0
Main template
#181
joe-angell
closed
4 years ago
0
preventing gtest from downloading after make clean
#180
joe-angell
closed
4 years ago
0
New prime id app
#179
joe-angell
closed
4 years ago
0
N exclude
#178
msettles
closed
4 years ago
0
Regex error
#177
pikabika
closed
4 years ago
4
Add an option to hts_NTrimmer that simply discards any read with an N
#176
samhunter
closed
4 years ago
1
HTStream needs more informative logs
#175
samhunter
closed
4 years ago
2
What should be done about Novaseq base qualities?
#174
samhunter
opened
4 years ago
1
making warnings error, upgrading google test to fix warnings
#173
joe-angell
closed
4 years ago
1
Better 10X support (was Possibility to do QC only on one pair?)
#172
jenzopr
opened
4 years ago
7
hts_SuperDeduper should mark duplicates by default, not remove them
#171
marade
opened
4 years ago
6
Multi threading adapter trimmer
#170
joe-angell
closed
4 years ago
1
symbol lookup error
#169
yingeddi2008
closed
4 years ago
3
Fix for #167 single end read case of polyattrim
#168
joe-angell
closed
4 years ago
0
hts_PolyATTrim segfaults when run with a single input file
#167
samhunter
closed
4 years ago
0
hts_PolyATTrim has three "-i" switches
#166
samhunter
closed
4 years ago
3
In SuperDeduper add ability to extract and use UMIs
#165
msettles
opened
4 years ago
0
N-trimmer add maxN parameter
#164
msettles
closed
4 years ago
1
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