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SciLifeLab
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facs
Fast and Accurate Classification of Sequences using Bloom filters
http://facs.scilifelab.se/
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Rename files to more intuitive ones, easing newcomers adoption
#83
brainstorm
closed
10 years ago
0
set contam clean pointers in simple_check_1_ge.c to the correct position after processing each chunk, simplify scoring system
#82
tzcoolman
closed
10 years ago
0
Spike randomised read
#81
guillermo-carrasco
closed
10 years ago
2
New command: info
#80
arvestad
closed
10 years ago
2
Templatize deconseq configuration
#79
brainstorm
closed
10 years ago
0
simNGS mapping for chromosomes
#78
brainstorm
closed
10 years ago
10
Further filtering/cleaning and unification of results in iriscouch for the benchmark
#77
brainstorm
closed
10 years ago
14
FACS, deconseq and fastq_screen are now comparable via CouchDB
#76
brainstorm
closed
10 years ago
1
MPI support and FACS remove
#75
tzcoolman
closed
10 years ago
13
Generate single-threaded fastq_screen config files for FACS benchmarking
#74
brainstorm
closed
10 years ago
1
Extend simNGS test to generate 100 simulated reads from each organism and spike an ecoli read on each of them
#73
brainstorm
closed
10 years ago
2
p value, new README, new facs_mpi
#72
tzcoolman
closed
10 years ago
8
Added description about virtualenv
#71
guillermo-carrasco
closed
10 years ago
1
Removed out-of-date help text
#70
arvestad
closed
10 years ago
0
Update tests results to iriscouch
#69
guillermo-carrasco
closed
10 years ago
0
License
#68
arvestad
closed
10 years ago
6
Global var substitution is evil, send_couchdb apparently broken
#67
brainstorm
closed
11 years ago
2
fastq_screen.py
#66
tzcoolman
closed
10 years ago
2
FP and FN for Fastq_screen
#65
tzcoolman
closed
11 years ago
2
Auto tests with human or mouse references?
#64
tzcoolman
closed
11 years ago
1
Fix compilation error in clang
#63
guillermo-carrasco
closed
11 years ago
0
Trying to figure out our issue with libssl @travis: https://travis-ci.or...
#62
brainstorm
closed
11 years ago
1
try
#61
tzcoolman
closed
11 years ago
1
for travis to test
#60
tzcoolman
closed
11 years ago
5
FACS not compiling in OSX
#59
guillermo-carrasco
closed
11 years ago
3
Automate Deconseq runs via testsuite
#58
brainstorm
closed
10 years ago
10
refactor simNGS to generate dm3 and spiked ecoli read
#57
brainstorm
closed
10 years ago
0
Fix fastq_screen test
#56
guillermo-carrasco
closed
10 years ago
1
merge remove.c into big_query.c
#55
tzcoolman
closed
11 years ago
2
Stdout is returned by bq_main instead of printing in the middle of program execution
#54
brainstorm
closed
11 years ago
1
stdout or saving into the file
#53
tzcoolman
closed
11 years ago
1
new k-mer system
#52
tzcoolman
closed
11 years ago
4
No need to normalize k-mer to the lower case
#51
tzcoolman
closed
11 years ago
2
gzip support lacking for "facs remove"
#50
arvestad
closed
10 years ago
1
Basic tests on remove(), classification functionality
#49
brainstorm
closed
11 years ago
0
"remove" merge complete. But still needs to fix bug for "remove" mode 1
#48
tzcoolman
closed
11 years ago
1
Test pass, build() generates normalized bloom filters, query() checks against normalized seqs too
#47
brainstorm
closed
11 years ago
0
Write testcase before fixing case sensitive bloom filters and genomes bug
#46
brainstorm
closed
11 years ago
0
Pipe the output of simNGS directly to a file
#45
guillermo-carrasco
closed
11 years ago
0
Fix on Makefile, adds back support for OpenMP on Linux
#44
brainstorm
closed
11 years ago
0
omp pragmas ignored during compilation
#43
blahah
closed
11 years ago
1
We are not supporting fasta format anymore?
#42
tzcoolman
closed
11 years ago
1
Fixes #40
#41
guillermo-carrasco
closed
11 years ago
0
test_simnsg.py fails if executed alone
#40
guillermo-carrasco
closed
11 years ago
0
Added support for LLVM/clang MacOSX
#39
brainstorm
closed
11 years ago
2
Giving a sequence to classify (query) rather than a file with sequences
#38
vals
closed
11 years ago
5
Add requirements.txt and only run basic testsuite with "make tests"
#37
brainstorm
closed
11 years ago
0
-l support for good_build.c
#36
tzcoolman
closed
11 years ago
0
Support for paired end reads
#35
brainstorm
opened
11 years ago
9
facs build
#34
henrikstranneheim
closed
11 years ago
4
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