Releases | Open Source Science

fix the error of sublocal which cannot manage the seq_id has no transcript
update the code for avoid the warning message for no sRNA sequence generated from sRNA target prediction.

- Python
Published by Sung-Huan over 3 years ago

annogesic - ANNOgesic version 1.1.7

fix the error for searching riboswitch - the seq_id has no detected transcript.
fix the bug for checking the repeated detected riboswitches - miss printing the reprehensive riboswitch for repeated ones.

- Python
Published by Sung-Huan over 3 years ago

annogesic - ANNOgesic version 1.1.6

Fix the error of go term mapping - a seq_id has no transcript.

- Python
Published by Sung-Huan over 3 years ago

annogesic - ANNOgesic version 1.1.5

Fix the error of using a specific sRNA for sRNA target prediction.

- Python
Published by Sung-Huan over 3 years ago

annogesic - ANNOgesic version 1.1.4

fix the bug from plotting statistics results of snp_calling.

- Python
Published by Sung-Huan over 3 years ago

annogesic - ANNOgesic version 1.1.0

Update the code for adapting TSSpredator 1.1 beta.
Due to 1. the interface is changed. The details can be checked in the documentation.

- Python
Published by Sung-Huan over 4 years ago

annogesic - ANNOgesic version 1.0.22

fix the bug of extracting the sequences of sRNAs (multiple accession ID)

- Python
Published by Sung-Huan almost 5 years ago

annogesic - ANNOgesic version 1.0.21

fix the bug of merging the results from two sRNA target methods.

- Python
Published by Sung-Huan almost 5 years ago

annogesic - ANNOgesic version 1.0.20

upload the missing script for the wig format without span

- Python
Published by Sung-Huan over 5 years ago

annogesic - ANNOgesic version 1.0.19

Update the code for the latest version of Biopython

- Python
Published by Sung-Huan over 5 years ago

annogesic - ANNOgesic version 1.0.17

make wig format without span information acceptable for running
fix the bug with gff comparison

- Python
Published by Sung-Huan over 5 years ago

annogesic - ANNOgesic version 1.0.16

fix the error of type matching for sRNA overlap checking, assign to float
exclude the ID checking for exon
add the script for handling long id for sRNA target prediction

- Python
Published by Sung-Huan over 5 years ago

annogesic - ANNOgesic version 1.0.15

Fix the error of checking overlapping regions for sRNA detection.
Update licence.

- Python
Published by Sung-Huan over 5 years ago

annogesic - ANNOgesic version 1.0.14

fix the error of annotation transfer due to the wrong path of the embl folder
adapt sRNA target prediction for circular genome and make the targets from all sequences in the file
adapt the gff parser for circular plasmid
fix the error of fasta reading with empty line
add the checking for ID in gff file and fix the error of ID searching if no ID available
fix the error of lack a types of TSS for promoter prediction

- Python
Published by Sung-Huan over 5 years ago

annogesic - ANNOgesic version 1.0.13

add the statement for checking IntaRNA results and remove the lines which missing the required information.
add the statement for checking --comparefeaturegenome in transcript detection.

- Python
Published by Sung-Huan over 5 years ago

annogesic - ANNOgesic version 1.0.12

fix the problem which conflict in root folder.
fix the error of annotation transfer.

- Python
Published by Sung-Huan almost 6 years ago

annogesic - ANNOgesic version 1.0.11

Fix the error of using TSS file which is not from ANNOgesic for predicting sRNAs.
Add code for checking sRNA attributes.

- Python
Published by Sung-Huan almost 6 years ago

annogesic - ANNOgesic version 1.0.10

Add the function for parsing old format of refseq ("|" contained).
Making the output filename of using gff3 better.

- Python
Published by Sung-Huan about 6 years ago

annogesic - ANNOgesic version 1.0.9

Extend the function of tssps for using optimized parameters from optimizetss_ps directly.
The user can assign different parameters for multiple genomes for tss_ps.

- Python
Published by Sung-Huan about 6 years ago

annogesic - ANNOgesic version 1.0.8

Fix PyPi issue for download

- Python
Published by Sung-Huan over 6 years ago

annogesic - ANNOgesic version 1.0.7

Add a bug checking program for sRNA detection. Add a cutoff of bit score of Blast for sRNA detection.

- Python
Published by Sung-Huan over 6 years ago

annogesic - ANNOgesic version 1.0.6

Add the module for parsing the IDs containing underline for sRNA target prediction.
Fix the error for running unit test in GO term detection.

- Python
Published by Sung-Huan over 6 years ago

annogesic - ANNOgesic version 1.0.5

fix the error of sRNA target prediction - the rank with NA

- Python
Published by Sung-Huan over 6 years ago

annogesic - ANNOgesic version 1.0.4

fix the error of missing manual detected TSSs.

- Python
Published by Sung-Huan over 6 years ago

annogesic - ANNOgesic version 1.0.3

Fix the error of checking overlap TSSs for multiple accession numbers.
Fix the error of parameter types for promoter prediction.
Make genome fasta file to be required input for sRNA prediction.

- Python
Published by Sung-Huan over 6 years ago

annogesic - ANNOgesic version 1.0.2b

Add benmarking sets of sRNAs.

- Python
Published by Sung-Huan over 6 years ago

annogesic - ANNOgesic version 1.0.2

fix the bug of redundant sRNA target prediction

- Python
Published by Sung-Huan about 7 years ago

annogesic - ANNOgesic version 1.0.1

Fix a bug for UTR detection - the same starting point and end point between CDS and transcript.

- Python
Published by Sung-Huan over 7 years ago

annogesic - ANNOgesic version 1.0.0

ANNOgesic version 1.0.0. Officially published

- Python
Published by Sung-Huan over 7 years ago

annogesic - ANNOgesic version 0.7.33

ANNOgesic version 0.7.33

- Python
Published by Sung-Huan over 7 years ago

annogesic - ANNOgesic version 0.7.32

ANNOgesic version 0.7.32

- Python
Published by Sung-Huan over 7 years ago

annogesic - ANNOgesic version 0.7.30

ANNOgesic version 0.7.30

- Python
Published by Sung-Huan over 7 years ago

annogesic - ANNOgesic version 0.7.29

ANNOgesic version 0.7.29

- Python
Published by Sung-Huan over 7 years ago

annogesic - ANNOgesic version 0.7.28

ANNOgesic version 0.7.28

- Python
Published by Sung-Huan over 7 years ago

annogesic - ANNOgesic version 0.7.27

ANNOgesic version 0.7.27

- Python
Published by Sung-Huan over 7 years ago

annogesic - ANNOgesic version 0.7.26

ANNOgesic version 0.7.26

- Python
Published by Sung-Huan over 7 years ago

annogesic - ANNOgesic version 0.7.23

ANNOgesic version 0.7.23

- Python
Published by Sung-Huan almost 8 years ago

annogesic - ANNOgesic version 0.7.22

ANNOgesic version 0.7.22

- Python
Published by Sung-Huan almost 8 years ago

annogesic - ANNOgesic version 0.7.20

ANNOgesic version 0.7.20

- Python
Published by Sung-Huan almost 8 years ago

annogesic - ANNOgesic version 0.7.19

ANNOgesic version 0.7.19

- Python
Published by Sung-Huan almost 8 years ago

annogesic - ANNOgesic version 0.7.18

ANNOgesic version 0.7.18

- Python
Published by Sung-Huan almost 8 years ago

annogesic - ANNOgesic version 0.7.17

ANNOgesic version 0.7.17

- Python
Published by Sung-Huan almost 8 years ago

annogesic - ANNOgesic version 0.7.16

ANNOgesic version 0.7.16

- Python
Published by Sung-Huan almost 8 years ago

annogesic - ANNOgesic version 0.7.14

ANNOgesic version 0.7.14

- Python
Published by Sung-Huan almost 8 years ago