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blahah
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transrate
Understand your transcriptome assembly
http://hibberdlab.com/transrate
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Merge and cufflinks
#154
colindaven
closed
9 years ago
2
Log outputs from SNAP and Salmon to file to help with debugging
#153
blahah
closed
9 years ago
0
Be helpful with non-unique FASTA records
#152
blahah
closed
9 years ago
0
The install-deps option at command line
#151
cboursnell
closed
9 years ago
0
CLI refactor
#150
blahah
closed
9 years ago
0
transrate-1.0.0-linux-x86_64/lib/app/ruby/bin/ruby: No such file or directory
#149
tseemann
closed
9 years ago
2
Create a tidy directory structure to contain interim files
#148
blahah
closed
9 years ago
5
Score database
#147
macmanes
opened
9 years ago
2
How to evaluate differences in transrate score
#146
macmanes
opened
9 years ago
0
fixed problem with multiple assemblies
#145
cboursnell
closed
9 years ago
2
What does this error mean? Error: option '-r' specified multiple times
#144
amabdelhaliem
closed
9 years ago
6
--help message should be as succinct as possible
#143
blahah
closed
9 years ago
0
Create a wiki with some extra help
#142
blahah
opened
9 years ago
0
Integrate bindeps into release packaging process
#141
blahah
closed
8 years ago
1
Add support for BLAST DB aliases
#140
standage
opened
9 years ago
1
whole new comparative metrics code and tests
#139
cboursnell
closed
9 years ago
0
Add interpretation guide to help
#138
blahah
opened
9 years ago
0
dumb user mistake reveals strange behavior
#137
macmanes
opened
9 years ago
1
Report all metrics to appropriate number of significant figures
#136
blahah
closed
9 years ago
0
Allow user to specify contig-filtering cutoff
#135
blahah
opened
9 years ago
0
Add syntax for supplying multiple fastq files to docs
#134
blahah
closed
9 years ago
1
check for salmon output
#133
cboursnell
closed
9 years ago
3
beta3 bug in calculating read diagnostics
#132
macmanes
closed
8 years ago
5
beta3 install issues
#131
macmanes
closed
9 years ago
1
fixed some tests because of changes to salmon in v0.3.0
#130
cboursnell
closed
9 years ago
3
output merged filename is taken from arguments
#129
cboursnell
closed
9 years ago
0
work towards beta4
#128
blahah
closed
9 years ago
0
new Trinity fasta headers causing problems
#127
macmanes
opened
9 years ago
7
dependencies need to be rebuilt for compatibility with older systems
#126
blahah
closed
9 years ago
0
fixed install error message
#125
cboursnell
closed
9 years ago
5
not passing --threads to salmon, defaults to 8 always
#124
blahah
closed
9 years ago
1
Only require blastplus to be installed if reference is specified
#123
cboursnell
closed
9 years ago
5
allow compressed reads as input (fastq.gz, fastq.bz2)
#122
blahah
opened
9 years ago
1
bugs in SNAP dependency
#121
blahah
closed
9 years ago
1
read p_seq_true from bam-read csv file. already pre-scaled
#120
cboursnell
closed
9 years ago
0
v1.0.0.beta2 release checklist
#119
blahah
closed
9 years ago
0
Replace eXpress with Salmon
#118
cboursnell
closed
9 years ago
1
fasta headers in vsearch clustered assembly breaking comparative metrics part
#117
macmanes
closed
9 years ago
6
add score to assembly csv file #112
#116
cboursnell
closed
9 years ago
1
fixed writing classified contigs to fasta files
#115
cboursnell
closed
9 years ago
1
add a progress meter and estimate of time remaining
#114
blahah
opened
9 years ago
2
move bin functionality to the main lib
#113
blahah
closed
9 years ago
1
transrate score should be included in assembly results csv
#112
blahah
closed
9 years ago
1
changed snap dependency to dev build
#111
blahah
closed
9 years ago
0
cboursnell changes before beta
#110
blahah
closed
9 years ago
1
v1.0.0 beta changes
#109
blahah
closed
10 years ago
0
Make setup for HPC machines easier
#108
blahah
closed
9 years ago
1
Move Cmd to its own gem
#107
blahah
opened
10 years ago
0
fasta name parsing with FastaDefline and bam existence checking
#106
cboursnell
closed
10 years ago
0
Add a Gitter chat badge to README.md
#105
gitter-badger
closed
10 years ago
1
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